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Reich, Michael M., Thorin Tabor, Edwin Juarez, Alexander Wenzel, Ted Liefeld, Barbara Hill, David Eby, et al. "Abstract 1903: GenePattern Notebook: An integrative analytical environment for cancer research." Cancer Research 82, no. 12_Supplement (June 15, 2022): 1903. http://dx.doi.org/10.1158/1538-7445.am2022-1903.
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Abstract As the availability of genomic data and analysis tools from large-scale cancer initiatives continues to increase, with single-cell studies adding new dimensions to the potential scientific insights, the need has become more urgent for a software environment that supports the rapid pace of cancer data science. The electronic analysis notebook has recently emerged as a versatile tool for this purpose, allowing scientists to combine the scientific exposition with the code that runs the analysis, creating a single “research narrative” document. The Jupyter Notebook system has become the de facto standard notebook environment in data science and genomic analysis. However, the Jupyter environment requires familiarity with programming to run analyses, and even text must be formatted using a programming-style language.To extend notebook capabilities to researchers at all levels of programming expertise, we developed the GenePattern Notebook environment, which integrates Jupyter with the hundreds of genomic tools available through the GenePattern platform. This tool allows scientists to develop, share, collaborate on, and publish their notebooks, requiring only a web browser. Investigators can design their in-silico experiments, refine workflows, launch compute-intensive analyses on cloud-based and high-performance compute resources, and publish results that others can adopt to reproduce the original analyses and modify for their own work.GenePattern Notebook provides: (1) Access to a wide range of genomic analyses within a notebook. Hundreds of analyses are available, from machine learning techniques such as clustering, classification, and dimension reduction, to omic-specific methods for gene expression analysis, proteomics, flow cytometry, sequence variation analysis, pathway analysis, and others. (2) A library of featured genomic analysis notebooks, including templates for common analysis tasks as well as cancer-specific research scenarios and compute-intensive methods. Scientists can easily copy these notebooks, use them as is, or adapt them for their research purposes. To support the growing role of single-cell analysis, we have recently released single-cell RNA-seq preprocessing, cluster harmonization, pseudotime, and RNA velocity notebooks. (3) Notebook enhancements. A rich text editor allows scientists to format text as they would in a word processor. A user interface-building tool allows notebook developers to wrap code so it is displayed as a web form, with only the necessary inputs exposed. (4) Publication and collaborative editing. Authors can publish their notebooks, where they are then made available on the community section of the notebook workspace, where other scientists may copy, run, and edit their own version.The GenePattern Notebook environment is freely available at http://genepattern-notebook.org. Citation Format: Michael M. Reich, Thorin Tabor, Edwin Juarez, Alexander Wenzel, Ted Liefeld, Barbara Hill, David Eby, Forrest Kim, Helga Thorvaldsdóttir, Pablo Tamayo, Jill P. Mesirov. GenePattern Notebook: An integrative analytical environment for cancer research [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 1903.
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Lewin, Jonathan, and MacKichan Software Inc. "What is Scientific Notebook?" College Mathematics Journal 33, no. 5 (November 2002): 426. http://dx.doi.org/10.2307/1559021.
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Migliorini Mendes, Reisila Simone, Juliana Nascimento Magno, Flávia Moreira Gomes, Fernanda de Jesus Costa, Gracielle Pereira Pimenta Bragança, Nina Castro Jorge, and Rosy Mary dos Santos Isaias. "Do we need plants to survive? Triggering interest in Plant Science." Research, Society and Development 12, no. 1 (January 9, 2023): e23712139614. http://dx.doi.org/10.33448/rsd-v12i1.39614.
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The concept of plant blindness deals with the human inability to perceive the plants around, although they are essential for the basis of life on Earth. Furthermore, the daily human coexistence with plants or with products derived from plants is indisputable. We look for strategies to reverse the perceptive capacity of plants in our daily lives, bringing the Scientia amabilis; to the foreground, focusing on Botany as a fundamental area of Biological Sciences. We proposed to undergraduate students of Biological Science the production of a botany notebook in which they record their daily experiences with plants and plant-derived products. The activity was carried out in four steps: (1) production of the text; (2) a conversation circle; (3) insertion of scientific botanical data in the notebooks; and (4) analysis of the notebook text contents. The relationships established by the students focused on the utilitarian perception. The scientific approaches followed mostly the logic of the textbooks, with emphasis on plant structures, followed by plant systematics and physiology. The analysis of the texts and the narrative of the students allows us to conclude that the production of the Botany Notebooks improved the students' perception the importance of plants for human survival and served as a trigger for interest in discussions of botanical the environmental balance and the maintenance of all levels of life on Earth.
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Pendley, Bradford D. "Keeping a Scientific Notebook: The Lego Exercise." Journal of Chemical Education 74, no. 9 (September 1997): 1065. http://dx.doi.org/10.1021/ed074p1065.1.
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Richardson, Michael L., and Behrang Amini. "Scientific Notebook Software: Applications for Academic Radiology." Current Problems in Diagnostic Radiology 47, no. 6 (November 2018): 368–77. http://dx.doi.org/10.1067/j.cpradiol.2017.09.005.
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Yakimchik, A. I. "Jupyter Notebook: a system for interactive scientific computing." Geofizicheskiy Zhurnal 41, no. 2 (April 17, 2019): 121. http://dx.doi.org/10.24028/gzh.0203-3100.v41i2.2019.164458.
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Goddard, Nigel H., Rory Macneil, and Jonathan Ritchie. "eCAT: Online electronic lab notebook for scientific research." Automated Experimentation 1, no. 1 (2009): 4. http://dx.doi.org/10.1186/1759-4499-1-4.
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Richardson, Michael L., and Behrang Amini. "Teaching Radiology Physics Interactively with Scientific Notebook Software." Academic Radiology 25, no. 6 (June 2018): 801–10. http://dx.doi.org/10.1016/j.acra.2017.11.024.
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HORSMAN, FRANK. "Ralph Johnson's notebook." Archives of Natural History 22, no. 2 (June 1995): 147–67. http://dx.doi.org/10.3366/anh.1995.22.2.147.
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A botanical notebook is identified as Ralph Johnson's (1629–1695) of Brignall in North Yorkshire. Johnson was a great friend of John Ray (1627–1705). The dates of the notebook are established as 1649–1672, the botanical notes having been made in 1671–1672. The notebook demonstrates that Ray put Johnson's interest in botany on a scientific basis, in line with Johnson's studies of birds and fishes. It also permits a personal insight into the impact of the first edition of Ray's Catalogus Plantarum Angliae (1670) on British botany. The notebook demonstrates Ray's personal influence on the botanical discovery of Upper Teesdale, one of our most important botanical areas. An attempt is made to rectify the situation whereby Johnson is totally overlooked, despite Ray's very high opinion of him as a naturalist.
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Wagemann, Julia, Federico Fierli, Simone Mantovani, Stephan Siemen, Bernhard Seeger, and Jörg Bendix. "Five Guiding Principles to Make Jupyter Notebooks Fit for Earth Observation Data Education." Remote Sensing 14, no. 14 (July 12, 2022): 3359. http://dx.doi.org/10.3390/rs14143359.
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There is a growing demand to train Earth Observation (EO) data users in how to access and use existing and upcoming data. A promising tool for data-related training is computational notebooks, which are interactive web applications that combine text, code and computational output. Here, we present the Learning Tool for Python (LTPy), which is a training course (based on Jupyter notebooks) on atmospheric composition data. LTPy consists of more than 70 notebooks and has taught over 1000 EO data users so far, whose feedback is overall positive. We adapted five guiding principles from different fields (mainly scientific computing and Jupyter notebook research) to make the Jupyter notebooks more educational and reusable. The Jupyter notebooks developed (i) follow the literate programming paradigm by a text/code ratio of 3, (ii) use instructional design elements to improve navigation and user experience, (iii) modularize functions to follow best practices for scientific computing, (iv) leverage the wider Jupyter ecosystem to make content accessible and (v) aim for being reproducible. We see two areas for future developments: first, to collect feedback and evaluate whether the instructional design elements proposed meet their objective; and second, to develop tools that automatize the implementation of best practices.
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Halim, Chandra, and Febri Satria. "Analisa Komparasi Perangkat Speech Recognizing dan Potensinya dalam Membantu Proses Pembelajaan Difabel Rungu Guna Terciptanya Kampus Inklusif Di Era 4.0." Risenologi : Jurnal Sains, Teknologi, Sosial, Pendidikan, dan Bahasa 5, no. 1 (April 29, 2020): 56–63. http://dx.doi.org/10.47028/j.risenologi.2020.51.79.
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The lack of facilities and infrastructures for students with special needs will hamper the learning process. In fact, this has been explained in the definition of inclusive education which is to accommodate students with special needs to comprehend the material in the class. The fact is that there are only public facilities such as the guiding block for the blind, and some interpreters in the class to explain the material. This situation is exacerbated by the limitations of an interpreter to explain scientific terms. Therefore, we need a technology that can help deaf people to comprehend the material in the classroom directly. The technology is speech recognizing device. This device enables to process input signals in the form of sound and is converted into text. This technology enables deaf people to comprehend material in the classroom without an interpreter. The research method is inferential statistics and observations. Observations were made by measuring 26 respondents speaking speed to obtain data using 3 different applications namely Speech Notes, Voice Notebooks, Speech to Text. Afterthat, the words obtained in the application are compared with the actual text to see the accuracy of each application. By using inferential statistics, the correlation test values obtained in the application of Voice Notebooks, Speech Notes, Speech to Text are 0.386,0.351, and 0.152, respectively. By using 5% significance level, we found that the most accurate speech recognizing application is Voice Notebook. Due to Voice Notebook application, we can support the special students in learning process in the class.
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Rosenberg, David M., and Charles C. Horn. "Neurophysiological analytics for all! Free open-source software tools for documenting, analyzing, visualizing, and sharing using electronic notebooks." Journal of Neurophysiology 116, no. 2 (August 1, 2016): 252–62. http://dx.doi.org/10.1152/jn.00137.2016.
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Neurophysiology requires an extensive workflow of information analysis routines, which often includes incompatible proprietary software, introducing limitations based on financial costs, transfer of data between platforms, and the ability to share. An ecosystem of free open-source software exists to fill these gaps, including thousands of analysis and plotting packages written in Python and R, which can be implemented in a sharable and reproducible format, such as the Jupyter electronic notebook. This tool chain can largely replace current routines by importing data, producing analyses, and generating publication-quality graphics. An electronic notebook like Jupyter allows these analyses, along with documentation of procedures, to display locally or remotely in an internet browser, which can be saved as an HTML, PDF, or other file format for sharing with team members and the scientific community. The present report illustrates these methods using data from electrophysiological recordings of the musk shrew vagus—a model system to investigate gut-brain communication, for example, in cancer chemotherapy-induced emesis. We show methods for spike sorting (including statistical validation), spike train analysis, and analysis of compound action potentials in notebooks. Raw data and code are available from notebooks in data supplements or from an executable online version, which replicates all analyses without installing software—an implementation of reproducible research. This demonstrates the promise of combining disparate analyses into one platform, along with the ease of sharing this work. In an age of diverse, high-throughput computational workflows, this methodology can increase efficiency, transparency, and the collaborative potential of neurophysiological research.
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Marcum, James A. "Constructing a scientific paper: Howell's prothrombin laboratory notebook and paper." International Studies in the Philosophy of Science 15, no. 3 (October 2001): 293–310. http://dx.doi.org/10.1080/02698590120080226.
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Weerawarana, Sanjiva, Anupam Joshi, Elias N. Houstis, John R. Rice, and Ann C. Catlin. "Notebook interfaces for networked scientific computing: design and WWW implementation." Concurrency: Practice and Experience 9, no. 7 (July 1997): 675–95. http://dx.doi.org/10.1002/(sici)1096-9128(199707)9:7<675::aid-cpe261>3.0.co;2-3.
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Castro, Diogo, Prasanth Kothuri, Piotr Mrowczynski, Danilo Piparo, and Enric Tejedor. "Apache Spark usage and deployment models for scientific computing." EPJ Web of Conferences 214 (2019): 07020. http://dx.doi.org/10.1051/epjconf/201921407020.
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This talk is about sharing our recent experiences in providing data analytics platform based on Apache Spark for High Energy Physics, CERN accelerator logging system and infrastructure monitoring. The Hadoop Service has started to expand its user base for researchers who want to perform analysis with big data technologies. Among many frameworks, Apache Spark is currently getting the most traction from various user communities and new ways to deploy Spark such as Apache Mesos or Spark on Kubernetes have started to evolve rapidly. Meanwhile, notebook web applications such as Jupyter offer the ability to perform interactive data analytics and visualizations without the need to install additional software. CERN already provides a web platform, called SWAN (Service for Web-based ANalysis), where users can write and run their analyses in the form of notebooks, seamlessly accessing the data and software they need. The first part of the presentation talks about several recent integrations and optimizations to the Apache Spark computing platform to enable HEP data processing and CERN accelerator logging system analytics. The optimizations and integrations, include, but not limited to, access of kerberized resources, xrootd connector enabling remote access to EOS storage and integration with SWAN for interactive data analysis, thus forming a truly Unified Analytics Platform. The second part of the talk touches upon the evolution of the Apache Spark data analytics platform, particularly sharing the recent work done to run Spark on Kubernetes on the virtualized and container-based infrastructure in Openstack. This deployment model allows for elastic scaling of data analytics workloads enabling efficient, on-demand utilization of resources in private or public clouds.
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Yaniv, Ziv, Bradley C. Lowekamp, Hans J. Johnson, and Richard Beare. "SimpleITK Image-Analysis Notebooks: a Collaborative Environment for Education and Reproducible Research." Journal of Digital Imaging 31, no. 3 (November 27, 2017): 290–303. http://dx.doi.org/10.1007/s10278-017-0037-8.
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Abstract Modern scientific endeavors increasingly require team collaborations to construct and interpret complex computational workflows. This work describes an image-analysis environment that supports the use of computational tools that facilitate reproducible research and support scientists with varying levels of software development skills. The Jupyter notebook web application is the basis of an environment that enables flexible, well-documented, and reproducible workflows via literate programming. Image-analysis software development is made accessible to scientists with varying levels of programming experience via the use of the SimpleITK toolkit, a simplified interface to the Insight Segmentation and Registration Toolkit. Additional features of the development environment include user friendly data sharing using online data repositories and a testing framework that facilitates code maintenance. SimpleITK provides a large number of examples illustrating educational and research-oriented image analysis workflows for free download from GitHub under an Apache 2.0 license: github.com/InsightSoftwareConsortium/SimpleITK-Notebooks.
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Parkinson, Jean, and Ralph Adendorff. "Role of the laboratory notebook in students’ acquisition of written scientific literacy." South African Journal of Linguistics 14, no. 3 (August 1996): 83–91. http://dx.doi.org/10.1080/10118063.1996.9724053.
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Amor-Martin, Adrian, Ignacio Martinez-Fernandez, and L. E. Garcia-Castillo. "Posidonia: A Tool for HPC and Remote Scientific Simulations [EM Programmer's Notebook]." IEEE Antennas and Propagation Magazine 57, no. 6 (December 2015): 166–77. http://dx.doi.org/10.1109/map.2015.2481824.
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Figueiredo, Ludmilla, Cédric Scherer, and Juliano Sarmento Cabral. "A simple kit to use computational notebooks for more openness, reproducibility, and productivity in research." PLOS Computational Biology 18, no. 9 (September 15, 2022): e1010356. http://dx.doi.org/10.1371/journal.pcbi.1010356.
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The ubiquitous use of computational work for data generation, processing, and modeling increased the importance of digital documentation in improving research quality and impact. Computational notebooks are files that contain descriptive text, as well as code and its outputs, in a single, dynamic, and visually appealing file that is easier to understand by nonspecialists. Traditionally used by data scientists when producing reports and informing decision-making, the use of this tool in research publication is not common, despite its potential to increase research impact and quality. For a single study, the content of such documentation partially overlaps with that of classical lab notebooks and that of the scientific manuscript reporting the study. Therefore, to minimize the amount of work required to manage all the files related to these contents and optimize their production, we present a starter kit to facilitate the implementation of computational notebooks in the research process, including publication. The kit contains the template of a computational notebook integrated into a research project that employs R, Python, or Julia. Using examples of ecological studies, we show how computational notebooks also foster the implementation of principles of Open Science, such as reproducibility and traceability. The kit is designed for beginners, but at the end we present practices that can be gradually implemented to develop a fully digital research workflow. Our hope is that such minimalist yet effective starter kit will encourage researchers to adopt this practice in their workflow, regardless of their computational background.
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Rahn, Jennifer, Dana Willner, James Deverick, Peter Kemper, and Margaret Saha. "Incorporating Computer Programming & Data Science into a Guided Inquiry-Based Undergraduate Ecology Lab." American Biology Teacher 81, no. 9 (November 2019): 649–57. http://dx.doi.org/10.1525/abt.2019.81.9.649.
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The biological sciences are becoming increasingly reliant on computer science and associated technologies to quickly and efficiently analyze and interpret complex data sets. Introducing students to data analysis techniques is a critical part of their development as well-rounded, scientifically literate citizens. As part of a collaborative effort between the Biology and Computer Science departments at William & Mary, we sought to develop laboratory exercises that would introduce basic ideas of data analysis while also exposing students to Python, a commonly used computer programming language. We accomplished this by developing exercises within the interactive Jupyter Notebook platform, an open-source application that allows Python code to be written and executed as discrete blocks in real time. Students used the developed Jupyter Notebook to analyze data collected as part of a multiweek ecology field experiment aimed at determining the effect of white-tailed deer on aspects of biological diversity. These inquiry-based laboratory exercises generated scientifically relevant data and gave students a chance to experience and participate in ongoing scientific research while demonstrating the utility of computer science in the scientific process.
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Babaian, Caryn. "Time Travel and the Naturalist's Notebook: Vladimir Nabokov Meets the TimeTree of Life." American Biology Teacher 80, no. 9 (November 1, 2018): 650–58. http://dx.doi.org/10.1525/abt.2018.80.9.650.
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Combining the TimeTree of Life database with the skill set of a naturalist, transitional changes, speciation, and evolutionary concepts emerge as a process in which students create and are fully engaged in a narrative & theme-based lesson plan/lab that merges with a scientific drawing experience that shadows the life of the naturalist and author Vladimir Nabokov. The interdisciplinary story and science of Nabokov offer a glimpse into applied arts as an exploratory scientific practice that encourages creativity and evolutionary thinking.
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List, Markus, Michael Franz, Qihua Tan, Jan Mollenhauer, and Jan Baumbach. "OpenLabNotes – An Electronic Laboratory Notebook Extension for OpenLabFramework." Journal of Integrative Bioinformatics 12, no. 3 (September 1, 2015): 16–25. http://dx.doi.org/10.1515/jib-2015-274.
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Summary Electronic laboratory notebooks (ELNs) are more accessible and reliable than their paper based alternatives and thus find widespread adoption. While a large number of commercial products is available, small- to mid-sized laboratories can often not afford the costs or are concerned about the longevity of the providers. Turning towards free alternatives, however, raises questions about data protection, which are not sufficiently addressed by available solutions. To serve as legal documents, ELNs must prevent scientific fraud through technical means such as digital signatures. It would also be advantageous if an ELN was integrated with a laboratory information management system to allow for a comprehensive documentation of experimental work including the location of samples that were used in a particular experiment. Here, we present OpenLabNotes, which adds state-of-the-art ELN capabilities to OpenLabFramework, a powerful and flexible laboratory information management system. In contrast to comparable solutions, it allows to protect the intellectual property of its users by offering data protection with digital signatures. OpenLabNotes effectively closes the gap between research documentation and sample management, thus making Open- LabFramework more attractive for laboratories that seek to increase productivity through electronic data management.
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Mandzhikova, Larisa B. "Рукопись Т. А. Бурдуковой «Программа занятий по монгольскому и ойратскому языкам»." Бюллетень Калмыцкого научного центра Российской академии наук 14, no. 2 (December 30, 2020): 49–67. http://dx.doi.org/10.22162/2587-6503-2020-2-14-49-67.
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Introduction. The A.V. Burdukov and T.A. Burdukova family archive (Form 21) kept at the Scientific Archive of the Kalmyk Scientific Center of the Russian Academy of Sciences contains unpublished and unanalyzed materials containing data on the scientific and social activities of the two outstanding scholars Alexei Vasilyevich Burdukov and his daughter Taisiya Alekseevna Burdukova. These materials include lecture notes and study programs. The materials from archive file No. 158 are of particular interest, they include two manuscripts of the above mentioned authors. The texts of the documents are written in a notebook, on the front side of the notebook the text was written by Alexey Vasilyevich, whereas on the back the text was written by Taisia Alexeyevna. The manuscript by A. V. Burdukov is a summary of the report for a meeting of the Political Circle of the Leningrad Oriental Institute on the topic “The Party during the period of factions (1907–1910)”, which was scheduled on April 1, 1936. The purpose of this article is to introduce into scientific circulation the text of the manuscript written by T. A. Burdukova — “Mongolian and Oirat Language Study Program” for the 1945–1946 academic year. The text of the manuscript is written in blue ink, it has faded in places which makes it difficult to read the manuscript. The text contains the author’s corrections and insertions. The text of the Program shows the topics Taisiya Alekseevna intended to convey to the students and how she planned to develop their skills in the Mongolian and Oirat language proficiency (in the old-written and modern aspects), the study of written sources, the ability to work with scientific literature and publications. Also, the teacher planned to instill in the audience a habit of reading non-fiction and fiction literature, to teach them analyze the material they have read. The study program includes approaches to teaching students, developing their skills of working with sources and literature in the Mongolian and Oirat languages, all these determine the value and significance of the manuscript by T.A. Burdukova.
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Mandzhikova, Larisa B. "Рукопись Т. А. Бурдуковой «Программа занятий по монгольскому и ойратскому языкам»." Бюллетень Калмыцкого научного центра Российской академии наук, no. 2 (December 30, 2020): 49–67. http://dx.doi.org/10.22162/2587-6503-2020-4-16-49-67.
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Introduction. The A.V. Burdukov and T.A. Burdukova family archive (Form 21) kept at the Scientific Archive of the Kalmyk Scientific Center of the Russian Academy of Sciences contains unpublished and unanalyzed materials containing data on the scientific and social activities of the two outstanding scholars Alexei Vasilyevich Burdukov and his daughter Taisiya Alekseevna Burdukova. These materials include lecture notes and study programs. The materials from archive file No. 158 are of particular interest, they include two manuscripts of the above mentioned authors. The texts of the documents are written in a notebook, on the front side of the notebook the text was written by Alexey Vasilyevich, whereas on the back the text was written by Taisia Alexeyevna. The manuscript by A. V. Burdukov is a summary of the report for a meeting of the Political Circle of the Leningrad Oriental Institute on the topic “The Party during the period of factions (1907–1910)”, which was scheduled on April 1, 1936. The purpose of this article is to introduce into scientific circulation the text of the manuscript written by T. A. Burdukova — “Mongolian and Oirat Language Study Program” for the 1945–1946 academic year. The text of the manuscript is written in blue ink, it has faded in places which makes it difficult to read the manuscript. The text contains the author’s corrections and insertions. The text of the Program shows the topics Taisiya Alekseevna intended to convey to the students and how she planned to develop their skills in the Mongolian and Oirat language proficiency (in the old-written and modern aspects), the study of written sources, the ability to work with scientific literature and publications. Also, the teacher planned to instill in the audience a habit of reading non-fiction and fiction literature, to teach them analyze the material they have read. The study program includes approaches to teaching students, developing their skills of working with sources and literature in the Mongolian and Oirat languages, all these determine the value and significance of the manuscript by T.A. Burdukova.
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Bednarczyk, Michał. "A Python Library for the Jupyteo IDE Earth Observation Processing Tool Enabling Interoperability with the QGIS System for Use in Data Science." Geomatics and Environmental Engineering 16, no. 1 (November 29, 2021): 117–44. http://dx.doi.org/10.7494/geom.2022.16.1.117.
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This paper describes JupyQgis – a new Python library for Jupyteo IDE enabling interoperability with the QGIS system. Jupyteo is an online integrated development environment for earth observation data processing and is available on a cloud platform. It is targeted at remote sensing experts, scientists and users who can develop the Jupyter notebook by reusing embedded open-source tools, WPS interfaces and existing notebooks. In recent years, there has been an increasing popularity of data science methods that have become the focus of many organizations. Many scientific disciplines are facing a significant transformation due to data-driven solutions. This is especially true of geodesy, environmental sciences, and Earth sciences, where large data sets, such as Earth observation satellite data (EO data) and GIS data are used. The previous experience in using Jupyteo, both among the users of this platform and its creators, indicates the need to supplement its functionality with GIS analytical tools. This study analyzed the most efficient way to combine the functionality of the QGIS system with the functionality of the Jupyteo platform in one tool. It was found that the most suitable solution is to create a custom library providing an API for collaboration between both environments. The resulting library makes the work much easier and simplifies the source code of the created Python scripts. The functionality of the developed solution was illustrated with a test use case.
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Giménez-Alventosa, Vicent, José Damián Segrelles, Germán Moltó, and Mar Roca-Sogorb. "APRICOT: Advanced Platform for Reproducible Infrastructures in the Cloud via Open Tools." Methods of Information in Medicine 59, S 02 (August 10, 2020): e33-e45. http://dx.doi.org/10.1055/s-0040-1712460.
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Abstract Background Scientific publications are meant to exchange knowledge among researchers but the inability to properly reproduce computational experiments limits the quality of scientific research. Furthermore, bibliography shows that irreproducible preclinical research exceeds 50%, which produces a huge waste of resources on nonprofitable research at Life Sciences field. As a consequence, scientific reproducibility is being fostered to promote Open Science through open databases and software tools that are typically deployed on existing computational resources. However, some computational experiments require complex virtual infrastructures, such as elastic clusters of PCs, that can be dynamically provided from multiple clouds. Obtaining these infrastructures requires not only an infrastructure provider, but also advanced knowledge in the cloud computing field. Objectives The main aim of this paper is to improve reproducibility in life sciences to produce better and more cost-effective research. For that purpose, our intention is to simplify the infrastructure usage and deployment for researchers. Methods This paper introduces Advanced Platform for Reproducible Infrastructures in the Cloud via Open Tools (APRICOT), an open source extension for Jupyter to deploy deterministic virtual infrastructures across multiclouds for reproducible scientific computational experiments. To exemplify its utilization and how APRICOT can improve the reproduction of experiments with complex computation requirements, two examples in the field of life sciences are provided. All requirements to reproduce both experiments are disclosed within APRICOT and, therefore, can be reproduced by the users. Results To show the capabilities of APRICOT, we have processed a real magnetic resonance image to accurately characterize a prostate cancer using a Message Passing Interface cluster deployed automatically with APRICOT. In addition, the second example shows how APRICOT scales the deployed infrastructure, according to the workload, using a batch cluster. This example consists of a multiparametric study of a positron emission tomography image reconstruction. Conclusion APRICOT's benefits are the integration of specific infrastructure deployment, the management and usage for Open Science, making experiments that involve specific computational infrastructures reproducible. All the experiment steps and details can be documented at the same Jupyter notebook which includes infrastructure specifications, data storage, experimentation execution, results gathering, and infrastructure termination. Thus, distributing the experimentation notebook and needed data should be enough to reproduce the experiment.
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Nishanbayeva, S. "FORMATION OF RESEARCH CULTURE OF YOUNGER SCHOOLCHILDREN THROUGH SCIENTIFIC IDEAS IN THE LEARNING PROCESS." BULLETIN Series of Pedagogical Sciences 72, no. 4 (December 15, 2021): 286–97. http://dx.doi.org/10.51889/2021-4.1728-5496.33.
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The article discusses some issues of the formation of the research culture of younger schoolchildren. Special philosophical approaches to the research culture are presented (achievement with the help of feelings, achievement with the help of the first knowledge achieved through feelings, achievement through research). And the psychological aspects of the formation of the research culture of younger schoolchildren are presented in several groups. In the article, the pedagogical aspects of the formation of the research culture of younger schoolchildren are understood as: the analysis of new concepts, the orientation of cultural communication to research activities, the ability to use research opportunities, develop the necessary positions, intelligently predict new information in various aspects, the choice of a topic, the necessary content and information selection. The algorithm for the formation of the research culture of younger schoolchildren is analyzed in four steps. The evaluation work on the identification of the formation of the research culture of younger schoolchildren using a test adapted to a natural science subject is described. A sample of the "STEM" notebook for the 4th grade is presented.
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Kurz, Débora Luana, Everton Bedin, and Claudia Lisete Oliveira Groenwald. "The Teaching of Natural Sciences in the Early Years of Elementary School to Educate a Scientifically Literate Individual." Acta Scientiae 23, no. 1 (February 11, 2021): 53–79. http://dx.doi.org/10.17648/acta.scientiae.6204.
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Background: One of the challenges in pedagogical practice in science in the initial years of elementary school (EF) is focused on developing objects of knowledge with an emphasis on scientific literacy. Objective: To investigate how the pedagogical practices of teachers of the 1st and 2nd grades of the elementary school contribute to promoting access and the development of scientific knowledge to educate a scientifically literate individual. Design: Ethnographic case study, through triangulation of data in a qualitative research perspective. Setting and Participants: Seven basic education women teachers who work in three different schools in the municipality of Vera Cruz/RS participated. Data collection: Observation and description in a logbook, questionnaires and interviews with teachers, as well as one student’s notebook and the official school document (Pedagogical Political Project). Results: The promotion of subsidies for access and mediation of scientific knowledge in teaching actions, although a significant portion of teachers has little corroborated the education of a scientifically literate individual. Conclusions: There must be actions aimed at continuing teacher education to favour significant school environment changes.
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Coles, Simon, Graham Tizzard, and Jan Kuras. "Opening up the Lab Notebook: Publishing Experimental & Supplementary Information." Acta Crystallographica Section A Foundations and Advances 70, a1 (August 5, 2014): C1690. http://dx.doi.org/10.1107/s2053273314083090.
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Supplementary Information supporting publications is not uniform across journals, is generally not 100% representative of the work undertaken, is not structured or comprehensive and therefore is often not fully considered in review. In chemistry articles where characterisation techniques are applied widely, crystallography is the exception in that there are universally agreed processes and protocols for presenting the scientific findings and the supporting data. Crystallography can therefore lead the way! Our approach to solving the broader problem of availability of supporting information is to expose the observations of the researchers who conducted the work when it was performed. By combining these observations with related data (eg in information management systems) and linking these with the article there is the potential for a much richer system for data supporting a publication. The Electronic Laboratory Notebook (ELN) plays a key role by establishing authenticity, adding structure to the record and having the capacity to be made open. We present a formal publication in Chemistry Central Journal (http://journal.chemistrycentral.com/content/7/1/182) which is a collaborative piece of work between the UK National Crystallography Service (University of Southampton) and the University of Greenwich, where the data supporting the article is not contained within it, but is openly exposed at source by an ELN and a crystal structure repository. We draw on the experience of crystallographic publishing and aligning that with the other characterisation techniques alongside which crystal structures are routinely published and related. The article presents all the supplementary information (some 35 or so data sources) in a single graphical approach, which permits examination of synthesis, spectra & structures in-line and provides a link to the original ELN record. All records are assigned a Digital Object Identifier (DOI) by a system established within the University.
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Herho, Sandy, and Irawan Dasapta Erwin. "PY-METEO-NUM: Dockerized Python Notebook Environment for Portable Data Analysis Workflows in Indonesian Atmospheric Science Communities." International Journal of Data Science 2, no. 1 (September 22, 2020): 38–46. http://dx.doi.org/10.18517/ijods.2.1.38-46.2021.
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Reproducibility and replicability in analyzing data is one of the main requirements for the advance-ment of scientific fields that rely heavily on computational data analysis, such as atmospheric science. However, there are very few research activities that field in Indonesia that emphasize the principle of transparency of codes and data in the dissemination of the results. This issue is a major challenge for the Indonesian scientific community to verify the output of research activities from their peers. One common obstacle to the reproducibility of data-driven research is the portability issue of the computing environment used to reproduce the results. Therefore, in this article, we would like to offer a solution through Debian-based dockerized Jupyter Notebook that have been installed with several Python libraries that are often used in atmospheric science research. Through this containerized computing environment, we expect to overcome the portability and dependency constraints that often faced by atmospheric scientists and also to encourage the growth of research ecosystem in Indonesia through an open and replicable environment.
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Bernstein, Matthew N., Ariella Gladstein, Khun Zaw Latt, Emily Clough, Ben Busby, and Allissa Dillman. "Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive." F1000Research 9 (May 19, 2020): 376. http://dx.doi.org/10.12688/f1000research.23180.1.
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The Sequence Read Archive (SRA) is a large public repository that stores raw next-generation sequencing data from thousands of diverse scientific investigations. Despite its promise, reuse and re-analysis of SRA data has been challenged by the heterogeneity and poor quality of the metadata that describe its biological samples. Recently, the MetaSRA project standardized these metadata by annotating each sample with terms from biomedical ontologies. In this work, we present a pair of Jupyter notebook-based tools that utilize the MetaSRA for building structured datasets from the SRA in order to facilitate secondary analyses of the SRA’s human RNA-seq data. The first tool, called the Case-Control Finder, finds suitable case and control samples for a given disease or condition where the cases and controls are matched by tissue or cell type. The second tool, called the Series Finder, finds ordered sets of samples for the purpose of addressing biological questions pertaining to changes over a numerical property such as time. These tools were the result of a three-day-long NCBI Codeathon in March 2019 held at the University of North Carolina at Chapel Hill.
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Bernstein, Matthew N., Ariella Gladstein, Khun Zaw Latt, Emily Clough, Ben Busby, and Allissa Dillman. "Jupyter notebook-based tools for building structured datasets from the Sequence Read Archive." F1000Research 9 (August 4, 2020): 376. http://dx.doi.org/10.12688/f1000research.23180.2.
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The Sequence Read Archive (SRA) is a large public repository that stores raw next-generation sequencing data from thousands of diverse scientific investigations. Despite its promise, reuse and re-analysis of SRA data has been challenged by the heterogeneity and poor quality of the metadata that describe its biological samples. Recently, the MetaSRA project standardized these metadata by annotating each sample with terms from biomedical ontologies. In this work, we present a pair of Jupyter notebook-based tools that utilize the MetaSRA for building structured datasets from the SRA in order to facilitate secondary analyses of the SRA’s human RNA-seq data. The first tool, called the Case-Control Finder, finds suitable case and control samples for a given disease or condition where the cases and controls are matched by tissue or cell type. The second tool, called the Series Finder, finds ordered sets of samples for the purpose of addressing biological questions pertaining to changes over a numerical property such as time. These tools were the result of a three-day-long NCBI Codeathon in March 2019 held at the University of North Carolina at Chapel Hill.
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De Souza Santana, Adriana Karla, Elilson Leal De Araújo, Waldeck Matheus De Oliveira Lins Belo, Bruno Pereira Gonçalves, Jean Mark Lobo de Oliveira, Rilmar Pereira Gomes, and David Barbosa de Alencar. "Hybrid Mobile Prototype for Evapotranspiration Calculation Using Raspberry Pi." International Journal for Innovation Education and Research 7, no. 11 (November 30, 2019): 743–55. http://dx.doi.org/10.31686/ijier.vol7.iss11.1929.
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The hybrid mobile prototype proposes to assist the farmer in obtaining crop evapotranspiration data reducing the effort in calculating them. In warm weather places, it is of the fundamental importance to verify a prototype for the calculation of evapotranspiration, thus favoring sustainable irrigation. To show this important discussion, a study was conducted highlighting the advantages of using the methods for calculating evapotranspiration cited by Hargreaves Samani and the Penman Monteith method. There is the need to use tools that automate the evaporation method, being able to access them on mobile devices with Android and iOS systems, and also notebook, bringing advantages and relevant contributions to the scientific community and potential users. The benefits of using automated irrigation can serve as basis for more conscious and sustainable decision making.
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Lew, Roger, Thomas A. Ulrich, and Ronald L. Boring. "Open Source Software Architecture for Computer Based Procedure Systems." Proceedings of the Human Factors and Ergonomics Society Annual Meeting 66, no. 1 (September 2022): 1503–7. http://dx.doi.org/10.1177/1071181322661347.
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In the US and globally Advanced Reactors are being developed. These Nuclear Power Plants (NPP) will utilize modern engineering and simulation tools, as well as modern control systems. New plants are safer and more flexible than previous generations. New opportunities exist for how plants could manage and operate reactors. Specifically, future plants could utilize fleet management and reduced staffing to decrease operational expenses. Tools are needed to support the development of computer-based procedure systems for advanced reactors. Here we find inspiration from scientific open source software tools (Python, Jupyter Notebook, Jupytext, Jupyter Book, Rmarkdown, Rstudio, MarkDown, MyST, Sphinx, Git) for rapid prototyping and evaluation of computer based procedure systems to support the design and evaluation of novel concept of operations for new reactors, conducting engineering tests, validating and optimizing operations using machine learning.
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L. Hall, Mona, and Didem Vardar-Ulu. "An inquiry-based biochemistry laboratory structure emphasizing competency in the scientific process: A guided approach with an electronic notebook format." Biochemistry and Molecular Biology Education 42, no. 1 (December 20, 2013): 58–67. http://dx.doi.org/10.1002/bmb.20769.
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Badenhorst, Melinda, Christopher J. Barry, Christiaan J. Swanepoel, Charles Theo van Staden, Julian Wissing, and Johann M. Rohwer. "Workflow for Data Analysis in Experimental and Computational Systems Biology: Using Python as ‘Glue’." Processes 7, no. 7 (July 18, 2019): 460. http://dx.doi.org/10.3390/pr7070460.
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Bottom-up systems biology entails the construction of kinetic models of cellular pathways by collecting kinetic information on the pathway components (e.g., enzymes) and collating this into a kinetic model, based for example on ordinary differential equations. This requires integration and data transfer between a variety of tools, ranging from data acquisition in kinetics experiments, to fitting and parameter estimation, to model construction, evaluation and validation. Here, we present a workflow that uses the Python programming language, specifically the modules from the SciPy stack, to facilitate this task. Starting from raw kinetics data, acquired either from spectrophotometric assays with microtitre plates or from Nuclear Magnetic Resonance (NMR) spectroscopy time-courses, we demonstrate the fitting and construction of a kinetic model using scientific Python tools. The analysis takes place in a Jupyter notebook, which keeps all information related to a particular experiment together in one place and thus serves as an e-labbook, enhancing reproducibility and traceability. The Python programming language serves as an ideal foundation for this framework because it is powerful yet relatively easy to learn for the non-programmer, has a large library of scientific routines and active user community, is open-source and extensible, and many computational systems biology software tools are written in Python or have a Python Application Programming Interface (API). Our workflow thus enables investigators to focus on the scientific problem at hand rather than worrying about data integration between disparate platforms.
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Li, Zhenlong, Xiao Huang, Tao Hu, Huan Ning, Xinyue Ye, Binghu Huang, and Xiaoming Li. "ODT FLOW: Extracting, analyzing, and sharing multi-source multi-scale human mobility." PLOS ONE 16, no. 8 (August 5, 2021): e0255259. http://dx.doi.org/10.1371/journal.pone.0255259.
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In response to the soaring needs of human mobility data, especially during disaster events such as the COVID-19 pandemic, and the associated big data challenges, we develop a scalable online platform for extracting, analyzing, and sharing multi-source multi-scale human mobility flows. Within the platform, an origin-destination-time (ODT) data model is proposed to work with scalable query engines to handle heterogenous mobility data in large volumes with extensive spatial coverage, which allows for efficient extraction, query, and aggregation of billion-level origin-destination (OD) flows in parallel at the server-side. An interactive spatial web portal, ODT Flow Explorer, is developed to allow users to explore multi-source mobility datasets with user-defined spatiotemporal scales. To promote reproducibility and replicability, we further develop ODT Flow REST APIs that provide researchers with the flexibility to access the data programmatically via workflows, codes, and programs. Demonstrations are provided to illustrate the potential of the APIs integrating with scientific workflows and with the Jupyter Notebook environment. We believe the platform coupled with the derived multi-scale mobility data can assist human mobility monitoring and analysis during disaster events such as the ongoing COVID-19 pandemic and benefit both scientific communities and the general public in understanding human mobility dynamics.
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Pérez-Salvatierra Saavedra, Begoña, and Elisa María Díaz González. "Estudios digitales fotográficos del Álbum Pintoresco de Canarias de Domingo Bello y Espinosa." Vegueta. Anuario de la Facultad de Geografía e Historia 22, no. 1 (February 7, 2022): 157–75. http://dx.doi.org/10.51349/veg.2022.1.09.
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El avance de las nuevas tecnologías digitales ha desencadenado la evolución de una gran variedad de técnicas utilizadas en el análisis de obras de arte y otros objetos de la cultura material humana. El presente artículo recoge el estudio digital de la técnica pictórica utilizada por el estudioso canario Domingo Bello y Espinosa (1817-1884) en su cuaderno Álbum Pintoresco de Canarias (1879). A partir del uso de la fotografía digital, se desarrolló un primer acercamiento a la caracterización de la técnica de este autor en la realización de sus ilustraciones científicas. Se invita a reflexionar sobre el desconocimiento de ilustraciones del canario y de la utilidad de la tecnología digital en su interpretación. Advances in new digital technologies have led to the blossoming of a great variety of techniques for analysing art objects, as well as other elements of material culture. This article outlines a digital study of the artistic technique employed by Canarian naturalist Domingo Bello y Espinosa (1817-1884) in his notebook Álbum Pintoresco de Canarias (1879, whereby digital photography has offered an initial approach to his technique of scientific illustration. The article brings to light this Canarian’s heretofore little-known scientific drawings while inviting reflection on the usefulness of digital technology in interpreting them.
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Khramykh, Anton. "Letters of Anna and Lubov Dostoevsky in the Archive of the National Library of France." Неизвестный Достоевский 8, no. 4 (December 2021): 112–29. http://dx.doi.org/10.15393/j10.art.2021.5761.
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The article introduces into scientific circulation two letters written by the widow and daughter of F. M. Dostoevsky in 1912 and 1924 and addressed to the famous French director Jacques Copeau. These documents were discovered as a result of archival searches in the J. Copeau foundation in the National Library of France. The two letters are connected by their subject — the debut production of the play “The Brothers Karamazov” by Copeau at the Paris Theater of Arts in 1911. Reviews of the production published in the European and Russian press contain range of opinions: from enthusiastic to sharply critical. In his letter A. G. Dostoevskaya praised Copeau’s drama, however, she familiarized herself with it without seeing the theatrical production itself, by reading the book that the director had sent her. The publication of Copeau’s play, which is based on the novel “The Brothers Karamazov”, is a little-known exhibit of the Memorial Museum of F. M. Dostoevsky, established by the writer's widow in 1889. It is mentioned only in the notebook of A. G. Dostoevskaya 1912–1913. The year of inclusion of published Copeau’s play in the collection of the Memorial Museum of F. M. Dostoevsky is established based on the letter and the notebook of the writer’s widow. The letter from L. F. Dostoevsky contains information about her communication with such famous French writers as Jacques Copeau, Irénée Mauget and Paul Bourgeois, as well as about the attempts of the copyright heiress to receive remuneration for the production undertaken by Copeau. These details augment the currently scarce information about the emigration period in the biography of the writer's daughter. The appendix to the article contains the letters of A. G. and L. F. Dostoevsky in French and in translation.
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Thube, Komal Bhaskar. "Prophecy on Programming Language using Machine Learning Algorithms." International Journal for Research in Applied Science and Engineering Technology 9, no. VI (June 30, 2021): 3699–706. http://dx.doi.org/10.22214/ijraset.2021.35746.
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A programming language is a computer language developers use to develop software programs, scripts, or other sets of instruction for computers to execute. It is difficult to determine which programming language is widely used. In our work, I have analyzed and compared the classification results of various machine learning models and find out which programming language is widely used by developers. I have used Support Vector Machine (SVM), K neighbor classifier (KNN),Decision Tree Classifier(CART) for our comparative study. My task is to analyze different data and to classify them for the efficiency of each algorithm in terms of accuracy, precision, recall, and F1 Score. My best accuracy was 94.29% percent which was found using SVM. These techniques are coded in python and executed in Jupyter NoteBook, the Scientific Python Development Environment. Our experiments have shown that SVM is the best for predictive analysis and from our study that SVM is the well-suited algorithm for the prediction of the most widely used programming language.
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Gul, Yavuz Ercan. "Reasons Why Kyrgyz Students Prefer Russian as the Language of Instruction in Universities: Student Views." Journal of Education and Learning 8, no. 2 (February 25, 2019): 77. http://dx.doi.org/10.5539/jel.v8n2p77.
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This study aimed to determine the reasons why university students in Kyrgyzstan prefer Russian as the language of instruction. Twenty university students were selected as the study group. While the semi-structured interview form was used as the data collection tool of the study designed in the phenomenology design, the content analysis technique was used as the data analysis technique. The data were collected from the students with a voice recorder and a notebook. The research has revealed that the most effective reason why the university students in Kyrgyzstan prefer Russian as the language of education is their concern for finding jobs in the future and the inadequacy of the Kyrgyz sources in scientific research. Among the reasons why students prefer Russian as the language of instruction, the least effective one is foreign language learning. The results were discussed in the context of the relevant literature and suggestions thought to serve to solve the problem were put forth.
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Casotti, G., L. Rieser-Danner, and M. T. Knabb. "Successful implementation of inquiry-based physiology laboratories in undergraduate major and nonmajor courses." Advances in Physiology Education 32, no. 4 (December 2008): 286–96. http://dx.doi.org/10.1152/advan.00100.2007.
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Recent evidence has demonstrated that inquiry-based physiology laboratories improve students' critical- and analytical-thinking skills. We implemented inquiry-based learning into three physiology courses: Comparative Vertebrate Physiology (majors), Human Physiology (majors), and Human Anatomy and Physiology (nonmajors). The aims of our curricular modifications were to improve the teaching of physiological concepts, teach students the scientific approach, and promote creative and critical thinking. We assessed our modifications using formative (laboratory exams, oral presentations, and laboratory reports) and summative evaluations (surveys, laboratory notebook, and an end of semester project). Students appreciated the freedom offered by the new curriculum and the opportunity to engage in the inquiry process. Results from both forms of evaluation showed a marked improvement due to the curricular revisions. Our analyses indicate an increased confidence in students' ability to formulate questions and hypotheses, design experiments, collect and analyze data, and make conclusions. Thus, we have successfully incorporated inquiry-based laboratories in both major and nonmajor courses.
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Hanna, Levchenko. "The interaction of tonal and modal principles of mode organization in the polyphonic cycle “34 Preludes and Fugues” by V. Bibik (based on Book III)." Aspects of Historical Musicology 24, no. 24 (October 13, 2021): 166–83. http://dx.doi.org/10.34064/khnum2-24.09.
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Statement of the problem. The article examines mode organization in the polyphonic cycle “34 Preludes and Fugues” by Ukrainian composer Valentin Bibik. The scientific novelty. The article explores modality and tonality as modeorganazing constituents in the polyphonic piano piece “34 Preludes and Fugues” by V. Bibik. The aim of the article is to indicate mode organization on the example of tonality and modality in polyphonic development of “The Third Notebook” (from the cycle “34 Preludes and Fugues”) by V. Bibik. The research methodology consists of integrated approaches to polyphonic music of the 20th century, including comparative and system-structural analyzes of musical works. Analysis of recent publications. The theoretical basis of the article is the latest publications by T. Bershadskaya (2008), N. Gulyanitskaya (1984), Yu. Kholopov (1972), M. Heinemann (2001), F. Hentschel (2006), I. Pustijanac (2016) and others. These studies investigate the compositional techniques of the twentieth century and their individual implementation into polyphonic works. When studying scientific sources, attention is focused on the interaction of polyphony and harmony since V. Bibik’s polyphonic cycle was chosen as the research material, in which polyphonic and harmonic patterns are closely intertwined, however, modal principles become the connecting factors, which is proved in the work. The presentation of the main material. The article investigates modern trends in the development of polyphonic music of the XX–XXI centuries, as well as the composer’s intention to create a mode organization in the cycle “34 Preludes and Fugues”. The article defines commonly used terms from the modern theory of musical modes regarding such phenomena as modality, tonality and their interconnection. The work presents the historiography of V. Bibik’s creative heritage in the context of the poliphony development. The work highlights the interaction of tonal and modal patterns in “The Third Notebook” (from the cycle “34 Preludes and Fugues”) by V. Bibik. Conclusions. The article argues the dominance of modality in structural organization of the cycle “34 Preludes and Fugues”. It is noted that the cycle accumulates a huge number of composer’s ideas regarding the interpretation of modern musical modes and tonal system. V. Bibik is not recognized as the author of the theoretical concepts of the mode organization in music, but the cycle itself is considered as a kind of composer’s creative manifesto, a vivid reflection of his conception of musical modes.
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Mar'i, Husnul, Ristiono Ristiono, Yosi Laila Rahmi, and Yuni Ahda. "Effect of Biology Module with Scientific Approach Equipped with a Glossary in discovery learning models Against Learning Competencies of Class X Students of SMAN 1 Pariaman." Jurnal Atrium Pendidikan Biologi 5, no. 4 (September 29, 2020): 31. http://dx.doi.org/10.24036/apb.v5i4.6264.
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The low learning competencies of students is caused by several problems encountered during the teaching and learning process, including the problems that the first textbook used has not involved students actively playing a role in the learning process, learning is still monotonous and the student notebook is incomplete. One of the efforts that is done to increase students’ learning competencies is to apply a biological module with a scientific approach equipped with a glossary in discovery learning models. This research used a Randomized Control Group Posttest Only Design. The population is all student of class 1 SMAN 1 Pariaman. Sampel was taken by using purposive sampling technique. The control class uses textbooks with learning models Discovery learning and experimental classes use biological modules with discovery learning models. Instrument The research instrument used was in the form of a learning competency test, an assessment of attitudes and skills in the form of an observation sheet. The t-test results revealed that knowledge competencies t count > t table (7.06> 1.7), t test results 'competency skills t count < t table ( 0,925< 1.7), and t test results' competency attitude t count < t table (0,76< 1.7). This shows that the hypothesis is accepted in the aspect of knowledge that is not followed by aspects of skills and attitudes. So, it can be concluded that the biological module with a scientific approach equipped with a glossary in the discovery learning model that has significance for learning competencies in the aspects of student knowledgeThe low learning competencies of students is caused by several problems encountered during the teaching and learning process, including the problems that the first textbook used has not involved students actively playing a role in the learning process, learning is still monotonous and the student notebook is incomplete. One of the efforts that is done to increase students’ learning competencies is to apply a biological module with a scientific approach equipped with a glossary in discovery learning models. This research used a Randomized Control Group Posttest Only Design. The population is all student of class 1 SMAN 1 Pariaman. Sampel was taken by using purposive sampling technique. The control class uses textbooks with learning models Discovery learning and experimental classes use biological modules with discovery learning models. Instrument The research instrument used was in the form of a learning competency test, an assessment of attitudes and skills in the form of an observation sheet. The t-test results revealed that knowledge competencies t count > t table (7.06> 1.7), t test results 'competency skills t count < t table ( 0,925< 1.7), and t test results' competency attitude t count < t table (0,76< 1.7). This shows that the hypothesis is accepted in the aspect of knowledge that is not followed by aspects of skills and attitudes. So, it can be concluded that the biological module with a scientific approach equipped with a glossary in the discovery learning model that has significance for learning competencies in the aspects of student knowledge.
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Muradova, Aliki D., and Georgios E. Stavroulakis. "PHYSICS-INFORMED NEURAL NETWORKS FOR ELASTIC PLATE PROBLEMS WITH BENDING AND WINKLER-TYPE CONTACT EFFECTS." Journal of the Serbian Society for Computational Mechanics 15, no. 2 (December 30, 2021): 46–55. http://dx.doi.org/10.24874/jsscm.2021.15.02.05.
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Kirchhoff plate bending and Winkler-type contact problems with different boundary conditions are solved with the use of physics-informed neural networks (PINN). The PINN is built on the base of mechanics laws and deep learning. The idea of the technique includes fitting the governing partial differential equations at collocation points and then training the neural network with the use of optimization techniques. Training of the neural network is performed by numerical optimization using Adam’s method and the L-BFGS (Limited- Broyden–Fletcher–Goldfarb–Shanno) algorithm. The error loss function and the computational error of the approximate solution (output of the neural network) of the bending problem and contact problem with Winkler type elastic foundation are shown on examples. The predictions of the NN are investigated for different values of the foundation’s constants. The effectiveness of the proposed framework is demonstrated through numerical experiments with different numbers of epochs, hidden layers, neurons and numbers of collocation points. The Tensorflow deep learning and scientific computing package of Python is used through a Jupyter Notebook.
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Schmitt, Natalie Crohn. "Theorizing about Performance: Why Now?" New Theatre Quarterly 6, no. 23 (August 1990): 231–34. http://dx.doi.org/10.1017/s0266464x0000453x.
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This article continues NTQ's recent exploration of the interaction between the study of theatrical performance and other disciplines – in this case, relating in particular to ‘Quantum Physics and the Language of Theatre’, published in NTQ 18 (1989). Schmitt argues that there is a correspondence between the contemporary interest in performance theory and the view of nature provided by modern physics. The analysis of nature in terms of events rather than objects, the perception of reality as a network of non-teleological, non-hierarchical relations, the interest in the interplay between nature and our perception of it: all correlate, she suggests, with an interest in theory of performance. Natalie Crohn Schmitt is Professor of Theater at the University of lllinois at Chicago. She published ‘Stanislavski, Creativity, and the Unconscious’ in NTQ 8 (1986), and has also published in Theatre Notebook, The British Journal of Aesthetics, Theatre Journal, Comparative Drama, Theatre Survey, and elsewhere. Her full-length study. Actors and Onlookers: Theater and Twentieth-Century Scientific Views of Nature has just appeared, from Northwestern University Press.
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Grebenkov, S. V. "NAVAL HYGIENIST PROFESSOR I. V. PETREEV (SCIENTIFIC AND HISTORICAL REVIEW IN VIEW OF 55TH ANNIVERSARY OF THE BIRTH)." Marine Medicine 4, no. 3 (October 7, 2018): 36–50. http://dx.doi.org/10.22328/2413-5747-2018-4-3-36-50.
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Scientific and historical reviewis dedicated to naval hygienist, head of a Department of Naval and Radiation Hygiene (2006–2013) in Military Medical Academy named after S. M. Kirov, holder of Habilitation degree in Medicine, professor Igor Vitalievich Petreev who turned 55 years. He has been working in Military Medical Academy for over 25 years. His contribution to the development of hygieology is that he formed a concept of multi-level optimization of hygienic quality forming for military personnel (2007) in the habilitational thesis. Also here viewed and explainedlist and types of advanced means intended on prevention of world ocean waters pollution from naval ships and vessels (1995). In addition he was initiator and co-author of two-volume guidance on naval and radiation hygiene, multimedia reference-training program «Environmental and health basics of health protection in military» (2001, 2002, 2007) and more than 20 guides. Also he co-authored biography monographs «Notebook of naval hygienists» (2012), «The first Russian Department of hygiene» (2015) and set of articles round the history of a Department of Naval and Radiation Hygiene. His military history sheet states only 2 home stations: Pacific Fleet — chief medical officer of submarine from 1988 to 1992 (Bolshoi Kamen and Petropavlovsk-Kamchatsky-53) and Military Medical Academy named after S. M. Kirov (Leningrad, Saint-Petersburg) — cadet (1982), adjunct (1992), lecturer (1995), as sistant professor (2003), chief of a department (2006), head of a department (2011) of Naval and Radiation Hygiene, since 2013 — professor of a Department (of common and military hygiene with the course of naval and radiation hygiene). Military service of professor I. V. Petreev ended in 2011 when the only one in the country Department of Naval and Radiation Hygiene became civil. After demobilization Igor Vitalievich teaches in Military Medical Academy to the present day.
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Dardis, Christopher, Eric C. Woolf, and Adrienne C. Scheck. "Towards reproducible research: From data analysis (in R) to a typeset laboratory notebook (as .pdf) using the text editor Emacs with the 'mp' package." F1000Research 4 (August 5, 2015): 483. http://dx.doi.org/10.12688/f1000research.6800.1.
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Much scientific research makes use of commonly available ’office’ software. While numerous more fully-featured open-source alternatives exist, the integration of diverse tools and platforms which their use often entails can be challenging. The mp package for Emacs aims to bring together a number of these elements with the goal of simplifying the process of converting an .R file, as used for data analysis, to a nicely formatted .pdf which includes the complete description of an experiment. We discuss the rationale for development of the package and illustrate its applications and options with a series of experiments from our laboratory.
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Fuscone, Simone, Benoit Favre, and Laurent Prévot. "Reproducibility in speech rate convergence experiments." Language Resources and Evaluation 55, no. 3 (January 29, 2021): 817–32. http://dx.doi.org/10.1007/s10579-021-09528-6.
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AbstractThe reproducibility of scientific studies grounded on language corpora requires approaching each step carefully, from data selection and pre-processing to significance testing. In this paper, we report on our reproduction of a recent study based on a well-known conversational corpus (Switchboard). The reproduced study Cohen Priva et al. (J Acoust Soc Am 141(5):2989–2996, 2017) focuses on speech rate convergence between speakers in conversation. While our reproduction confirms the main result of the original study, it also shows interesting variations in the details. In addition, we tested the original study for the robustness of its data selection and pre-processing, as well as the underlying model of speech rate, the variable observed. Our analysis shows that another approach is needed to take into account the complex aspects of speech rate in conversations. Another benefit of reproducing previous studies is to take analysis a step further, testing and strengthening the results of other research teams and increasing the validity and visibility of interesting studies and results. In this line, we also created a notebook of pre-processing and analysis scripts which is available online.
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Soares, Anniely Rodrigues, Anna Tereza Alves Guedes, Daniele de Souza Vieira, Rafaella Karolina Bezerra Pedrosa, Beatriz Rosana Gonçalves de Oliveira Toso, Neusa Collet, and Altamira Pereira da Silva Reichert. "Perception and use of the Child's Health Handbook by professionals and mothers: an interactionist approach." Rev Rene 23 (October 18, 2022): e81191. http://dx.doi.org/10.15253/2175-6783.20222381191.
Full textAbstract:
Objective: to understand the perception of health professionals and mothers about the Children's Handbook. Methods: qualitative study, developed in Family Health Units, with 25 professionals and 11 mothers of children under three years old by means of semi-structured interviews. The empirical material was submitted to Inductive Thematic Analysis and interpreted in the light of Symbolic Interactionism. Results: Child Health Handbook was seen as a multi-professional and intersectoral tool that allows continuity of care, guides the professional's conduct and the care of the child's family. However, it was still seen as a vaccination card. As for use, weaknesses were mentioned during home visits and in professionals' records. In addition, mothers only used it when they took the child to the health service. Conclusion: professionals and mothers presented distinct opinions about the Child Health Notebook. Some considered it as an extension of the medical record and others as a tool like the child's card, being used by specific professionals and at specific times. Contributions to practice: the data reveal meanings and perceptions of the health team and mothers about the Child's Health Handbook and its use, bringing contributions to the scientific knowledge on the subject.