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Journal articles on the topic 'Workflow systems'

Author: Grafiati

Published: 4 June 2021

Last updated: 30 January 2023

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1

Suetake, Hirotaka, Tomoya Tanjo, Manabu Ishii, et al. "Sapporo: A workflow execution service that encourages the reuse of workflows in various languages in bioinformatics." F1000Research 11 (August 4, 2022): 889. http://dx.doi.org/10.12688/f1000research.122924.1.

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The increased demand for efficient computation in data analysis encourages researchers in biomedical science to use workflow systems. Workflow systems, or so-called workflow languages, are used for the description and execution of a set of data analysis steps. Workflow systems increase the productivity of researchers, specifically in fields that use high-throughput DNA sequencing applications, where scalable computation is required. As systems have improved the portability of data analysis workflows, research communities are able to share workflows to reduce the cost of building ordinary analy

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Khan, Fakhri Alam, Sardar Hussain, Ivan Janciak, and Peter Brezany. "Towards Next Generation Provenance Systems for e-Science." International Journal of Information System Modeling and Design 2, no. 3 (2011): 24–48. http://dx.doi.org/10.4018/jismd.2011070102.

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e-Science helps scientists to automate scientific discovery processes and experiments, and promote collaboration across organizational boundaries and disciplines. These experiments involve data discovery, knowledge discovery, integration, linking, and analysis through different software tools and activities. Scientific workflow is one technique through which such activities and processes can be interlinked, automated, and ultimately shared amongst the collaborating scientists. Workflows are realized by the workflow enactment engine, which interprets the process definition and interacts with th

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Talia, Domenico. "Workflow Systems for Science: Concepts and Tools." ISRN Software Engineering 2013 (January 8, 2013): 1–15. http://dx.doi.org/10.1155/2013/404525.

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The wide availability of high-performance computing systems, Grids and Clouds, allowed scientists and engineers to implement more and more complex applications to access and process large data repositories and run scientific experiments in silico on distributed computing platforms. Most of these applications are designed as workflows that include data analysis, scientific computation methods, and complex simulation techniques. Scientific applications require tools and high-level mechanisms for designing and executing complex workflows. For this reason, in the past years, many efforts have been

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Jackson, Michael, Kostas Kavoussanakis, and Edward W. J. Wallace. "Using prototyping to choose a bioinformatics workflow management system." PLOS Computational Biology 17, no. 2 (2021): e1008622. http://dx.doi.org/10.1371/journal.pcbi.1008622.

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Workflow management systems represent, manage, and execute multistep computational analyses and offer many benefits to bioinformaticians. They provide a common language for describing analysis workflows, contributing to reproducibility and to building libraries of reusable components. They can support both incremental build and re-entrancy—the ability to selectively re-execute parts of a workflow in the presence of additional inputs or changes in configuration and to resume execution from where a workflow previously stopped. Many workflow management systems enhance portability by supporting th

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Deng, Ning, Xiao Dong Zhu, Yuan Ning Liu, Yan Pu Li, and Ying Chen. "A Workflow Management Model Based on Workflow Node Property." Applied Mechanics and Materials 442 (October 2013): 450–57. http://dx.doi.org/10.4028/www.scientific.net/amm.442.450.

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Workflow management systems are the powerful tools as well as the best supports for industries which involve series of complex workflows. Specifically, two of the main objectives of workflows management system are (1) ensuring the correctness and integration of workflow advancement, and (2) carrying workflow forward to the maximum extent automatically. To ensure the correctness and integration of workflow management system, in this paper, a workflow management method based on the workflow node property is proposed, and a workflow management system model is given. In addition, in the given mode

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Bahsi, Emir M., Emrah Ceyhan, and Tevfik Kosar. "Conditional Workflow Management: A Survey and Analysis." Scientific Programming 15, no. 4 (2007): 283–97. http://dx.doi.org/10.1155/2007/680291.

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Workflows form the essential part of the process execution both in a single machine and in distributed environments. Although providing conditional structures is not mandatory for a workflow management system, support for conditional workflows is very important in terms of error handling, flexibility and robustness. Several of the existing workflow management systems already support conditional structures via use of different constructs. In this paper, we study the most widely used workflow management systems and their support for conditional structures such as if, switch, and while. We compar

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Song, Tianhong, Sven Köhler, Bertram Ludäscher, et al. "Towards Automated Design, Analysis and Optimization of Declarative Curation Workflows." International Journal of Digital Curation 9, no. 2 (2014): 111–22. http://dx.doi.org/10.2218/ijdc.v9i2.337.

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Data curation is increasingly important. Our previous work on a Kepler curation package has demonstrated advantages that come from automating data curation pipelines by using workflow systems. However, manually designed curation workflows can be error-prone and inefficient due to a lack of user understanding of the workflow system, misuse of actors, or human error. Correcting problematic workflows is often very time-consuming. A more proactive workflow system can help users avoid such pitfalls. For example, static analysis before execution can be used to detect the potential problems in a work

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Wu, Na, Decheng Zuo, and Zhan Zhang. "Dynamic Fault-Tolerant Workflow Scheduling with Hybrid Spatial-Temporal Re-Execution in Clouds." Information 10, no. 5 (2019): 169. http://dx.doi.org/10.3390/info10050169.

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Improving reliability is one of the major concerns of scientific workflow scheduling in clouds. The ever-growing computational complexity and data size of workflows present challenges to fault-tolerant workflow scheduling. Therefore, it is essential to design a cost-effective fault-tolerant scheduling approach for large-scale workflows. In this paper, we propose a dynamic fault-tolerant workflow scheduling (DFTWS) approach with hybrid spatial and temporal re-execution schemes. First, DFTWS calculates the time attributes of tasks and identifies the critical path of workflow in advance. Then, DF

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Ghoshal, Devarshi, and Lavanya Ramakrishnan. "Programming Abstractions for Managing Workflows on Tiered Storage Systems." ACM Transactions on Storage 17, no. 4 (2021): 1–21. http://dx.doi.org/10.1145/3457119.

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Scientific workflows in High Performance Computing ( HPC ) environments are processing large amounts of data. The storage hierarchy on HPC systems is getting deeper, driven by new technologies (NVRAMs, SSDs, etc.) There is a need for new programming abstractions that allow users to seamlessly manage data at the workflow level on multi-tiered storage systems, and provide optimal workflow performance and use of storage resources. In previous work, we introduced a software architecture Managing Data on Tiered Storage for Scientific Workflows (MaDaTS ) that used a Virtual Data Space ( VDS ) abstra

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BLIN, MARIE JOSÉ, JACQUES WAINER, and CLAUDIA BAUZER MEDEIROS. "A REUSE-ORIENTED WORKFLOW DEFINITION LANGUAGE." International Journal of Cooperative Information Systems 12, no. 01 (2003): 1–36. http://dx.doi.org/10.1142/s0218843003000553.

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This paper presents a new formalism for workflow process definition, which combines research in programming languages and in database systems. This formalism is based on creating a library of workflow building blocks, which can be progressively combined and nested to construct complex workflows. Workflows are specified declaratively, using a simple high level language, which allows the dynamic definition of exception handling and events, as well as dynamically overriding workflow definition. This ensures a high degree of flexibility in data and control flow specification, as well as in reuse o

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Belhajjame, Khalid. "On the Anonymization of Workflow Provenance without Compromising the Transparency of Lineage." Journal of Data and Information Quality 14, no. 1 (2022): 1–27. http://dx.doi.org/10.1145/3460207.

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Workflows have been adopted in several scientific fields as a tool for the specification and execution of scientific experiments. In addition to automating the execution of experiments, workflow systems often include capabilities to record provenance information, which contains, among other things, data records used and generated by the workflow as a whole but also by its component modules. It is widely recognized that provenance information can be useful for the interpretation, verification, and re-use of workflow results, justifying its sharing and publication among scientists. However, work

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Kueng, Peter. "Workflow management systems." ACM SIGGROUP Bulletin 18, no. 3 (1997): 32–34. http://dx.doi.org/10.1145/270832.270840.

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Shiroor, Amruta, John Springer, Thomas Hacker, Brandeis Marshall, and Jeffrey Brewer. "Scientific workflow management systems and workflow patterns." International Journal of Business Process Integration and Management 5, no. 1 (2010): 63. http://dx.doi.org/10.1504/ijbpim.2010.033175.

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Held, Markus, Wolfgang Küchlin, and Wolfgang Blochinger. "MoBiFlow." International Journal of Service Science, Management, Engineering, and Technology 2, no. 4 (2011): 67–78. http://dx.doi.org/10.4018/ijssmet.2011100107.

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Web-based problem solving environments provide sharing, execution and monitoring of scientific workflows. Where they depend on general purpose workflow development systems, the workflow notations are likely far too powerful and complex, especially in the area of biology, where programming skills are rare. On the other hand, application specific workflow systems may use special purpose languages and execution engines, suffering from a lack of standards, portability, documentation, stability of investment etc. In both cases, the need to support yet another application on the desk-top places a bu

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McPhillips, Timothy, Tianhong Song, Tyler Kolisnik, et al. "YesWorkflow: A User-Oriented, Language-Independent Tool for Recovering Workflow Information from Scripts." International Journal of Digital Curation 10, no. 1 (2015): 298–313. http://dx.doi.org/10.2218/ijdc.v10i1.370.

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Scientific workflow management systems offer features for composing complex computational pipelines from modular building blocks, executing the resulting automated workflows, and recording the provenance of data products resulting from workflow runs. Despite the advantages such features provide, many automated workflows continue to be implemented and executed outside of scientific workflow systems due to the convenience and familiarity of scripting languages (such as Perl, Python, R, and MATLAB), and to the high productivity many scientists experience when using these languages. YesWorkflow is

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Gharbi, Nada, Mārīte Kirikova, and Lotfi Bouzguenda. "Integrated Cloud-Based Services for Medical Workflow Systems." Applied Computer Systems 20, no. 1 (2016): 36–39. http://dx.doi.org/10.1515/acss-2016-0013.

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Abstract Recent years have witnessed significant progress of workflow systems in different business areas. However, in the medical domain, the workflow systems are comparatively scarcely researched. In the medical domain, the workflows are as important as in other areas. In fact, the flow of information in the healthcare industry is even more critical than it is in other industries. Workflow can provide a new way of looking at how processes and procedures are completed in particular medical systems, and it can help improve the decision-making in these systems. Despite potential capabilities of

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Oliva, Gustavo Ansaldi, Marco Aurélio Gerosa, Fabio Kon, Virginia Smith, and Dejan Milojicic. "A Static Change Impact Analysis Approach based on Metrics and Visualizations to Support the Evolution of Workflow Repositories." International Journal of Web Services Research 13, no. 2 (2016): 74–101. http://dx.doi.org/10.4018/ijwsr.2016040105.

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In ever-changing business environments, organizations continuously refine their processes to benefit from and meet the constraints of new technology, new business rules, and new market requirements. Workflow management systems (WFMSs) support organizations in evolving their processes by providing them with technological mechanisms to design, enact, and monitor workflows. However, workflows repositories often grow and start to encompass a variety of interdependent workflows. Without appropriate tool support, keeping track of such interdependencies and staying aware of the impact of a change in

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Bukhari, S. Sabahat H., and Yunni Xia. "A Novel Completion-Time-Minimization Scheduling Approach of Scientific Workflows Over Heterogeneous Cloud Computing Systems." International Journal of Web Services Research 16, no. 4 (2019): 1–20. http://dx.doi.org/10.4018/ijwsr.2019100101.

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The cloud computing paradigm provides an ideal platform for supporting large-scale scientific-workflow-based applications over the internet. However, the scheduling and execution of scientific workflows still face various challenges such as cost and response time management, which aim at handling acquisition delays of physical servers and minimizing the overall completion time of workflows. A careful investigation into existing methods shows that most existing approaches consider static performance of physical machines (PMs) and ignore the impact of resource acquisition delays in their schedul

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Dinçer, Sevde Gülizar, and Tuğrul Yazar. "A comparative analysis of the digital re-constructions of muqarnas systems: The case study of Sultanhanı muqarnas in Central Anatolia." International Journal of Architectural Computing 19, no. 3 (2021): 360–85. http://dx.doi.org/10.1177/1478077121992487.

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This paper presents a comparative case study on the digital modeling workflows of a particular muqarnas system. After the literature review and the definition of the context, several digital modeling workflows were described as element-based, tessellation-based and block-based workflows by using computer-aided design and parametric modeling software. As the case study of this research, these workflows were tested on a muqarnas design located at the Sultanhanı Caravanserai in Central Anatolia. Then, workflows were compared according to three qualities: analytical, generative, and performative.

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Ndeta, John, Stamatia A. Katriou, and Kerstin V. Siakas. "An Approach To E-Workflow Systems With The Use Of Patterns." International Journal of Entrepreneurial Knowledge 3, no. 1 (2015): 4–20. http://dx.doi.org/10.1515/ijek-2015-0007.

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Abstract In today’s highly competitive and rapidly changing environment, e-businesses constantly have to modify their business processes, i.e. the flow of documents and tasks in a business also known as workflow. More flexible Workflow Management Systems are required to support these constantly changing processes. In this research a platform independent architecture for the design of e-workflow systems is illustrated. The architecture includes an information pool, namely a Workflow Pattern Repository, which contains patterns, which are repeatable solutions to reoccurring problems, in order to

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Jia, Nan, and Xiao Dong Fu. "A Method to Calculate the Process Similarity of the Manufacturing System Based on Tree Edit Distance." Advanced Materials Research 548 (July 2012): 699–703. http://dx.doi.org/10.4028/www.scientific.net/amr.548.699.

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For various applications in today’s workflow systems, such as process-discovering or clustering, it is necessary to measure the distance between two workflow models. In this paper, we proposed a method to calculate the distance between structured workflows based on tree edit distance. First, we transform workflows into structure trees, and calculate the edit distance between structure trees. Three properties of the workflow distance of workflows are proved, i.e., reflexivity, symmetry, triangle inequality. These properties make the distance measure can be used as a quantitative tool in effecti

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Deelman, Ewa, Gurmeet Singh, Mei-Hui Su, et al. "Pegasus: A Framework for Mapping Complex Scientific Workflows onto Distributed Systems." Scientific Programming 13, no. 3 (2005): 219–37. http://dx.doi.org/10.1155/2005/128026.

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This paper describes the Pegasus framework that can be used to map complex scientific workflows onto distributed resources. Pegasus enables users to represent the workflows at an abstract level without needing to worry about the particulars of the target execution systems. The paper describes general issues in mapping applications and the functionality of Pegasus. We present the results of improving application performance through workflow restructuring which clusters multiple tasks in a workflow into single entities. A real-life astronomy application is used as the basis for the study.

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Zhang, Haoqi, Eric Horvitz, and David Parkes. "Automated Workflow Synthesis." Proceedings of the AAAI Conference on Artificial Intelligence 27, no. 1 (2013): 1020–26. http://dx.doi.org/10.1609/aaai.v27i1.8681.

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By coordinating efforts from humans and machines, human computation systems can solve problems that machines cannot tackle alone. A general challenge is to design efficient human computation algorithms or workflows with which to coordinate the work of the crowd. We introduce a method for automated workflow synthesis aimed at ideally harnessing human efforts by learning about the crowd's performance on tasks and synthesizing an optimal workflow for solving a problem. We present experimental results for human sorting tasks, which demonstrate both the benefit of understanding and optimizing the s

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Atluri, Vijay. "Security for Workflow Systems." Information Security Technical Report 6, no. 2 (2001): 59–68. http://dx.doi.org/10.1016/s1363-4127(01)00207-2.

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Bernstein, Abraham, Chrysanthos Dellarocas, and Mark Klein. "Towards adaptive workflow systems." ACM SIGGROUP Bulletin 20, no. 2 (1999): 54–56. http://dx.doi.org/10.1145/331982.332008.

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Singh, Munindar P., and Michael N. Huhns. "Multiagent systems for workflow." International Journal of Intelligent Systems in Accounting, Finance & Management 8, no. 2 (1999): 105–17. http://dx.doi.org/10.1002/(sici)1099-1174(199906)8:2<105::aid-isaf163>3.0.co;2-#.

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Xu, Hong Zhen, Bin Tang, Ying Gui, and Huai Ping Wang. "A Dynamic Workflow Management Model Based on Web Services." Key Engineering Materials 439-440 (June 2010): 599–604. http://dx.doi.org/10.4028/www.scientific.net/kem.439-440.599.

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Workflow technology has emerged as one of those technologies designed to support modeling, designing and executing business processes. One of the major limitations of current workflow management systems is the lack of flexibility to support dynamic management of workflows. In this paper, we propose a dynamic workflow management model based on web services. We integrate web services and ontology technologies to support dynamic specifying, monitoring, analyzing, designing, configuring and executing workflows. We explain the need and functionality of the main modules and interfaces of the model,

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Deelman, Ewa, Tom Peterka, Ilkay Altintas, et al. "The future of scientific workflows." International Journal of High Performance Computing Applications 32, no. 1 (2017): 159–75. http://dx.doi.org/10.1177/1094342017704893.

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Today’s computational, experimental, and observational sciences rely on computations that involve many related tasks. The success of a scientific mission often hinges on the computer automation of these workflows. In April 2015, the US Department of Energy (DOE) invited a diverse group of domain and computer scientists from national laboratories supported by the Office of Science, the National Nuclear Security Administration, from industry, and from academia to review the workflow requirements of DOE’s science and national security missions, to assess the current state of the art in science wo

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Deelman, Ewa, Christopher Carothers, Anirban Mandal, et al. "PANORAMA: An approach to performance modeling and diagnosis of extreme-scale workflows." International Journal of High Performance Computing Applications 31, no. 1 (2016): 4–18. http://dx.doi.org/10.1177/1094342015594515.

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Computational science is well established as the third pillar of scientific discovery and is on par with experimentation and theory. However, as we move closer toward the ability to execute exascale calculations and process the ensuing extreme-scale amounts of data produced by both experiments and computations alike, the complexity of managing the compute and data analysis tasks has grown beyond the capabilities of domain scientists. Thus, workflow management systems are absolutely necessary to ensure current and future scientific discoveries. A key research question for these workflow managem

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Nguyen, P., M. Hilario, and A. Kalousis. "Using Meta-mining to Support Data Mining Workflow Planning and Optimization." Journal of Artificial Intelligence Research 51 (November 29, 2014): 605–44. http://dx.doi.org/10.1613/jair.4377.

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Knowledge Discovery in Databases is a complex process that involves many different data processing and learning operators. Today's Knowledge Discovery Support Systems can contain several hundred operators. A major challenge is to assist the user in designing workflows which are not only valid but also -- ideally -- optimize some performance measure associated with the user goal. In this paper we present such a system. The system relies on a meta-mining module which analyses past data mining experiments and extracts meta-mining models which associate dataset characteristics with workflow descri

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Schulz, Karsten A., and Maria E. Orlowska. "Facilitating cross-organisational workflows with a workflow view approach." Data & Knowledge Engineering 51, no. 1 (2004): 109–47. http://dx.doi.org/10.1016/j.datak.2004.03.008.

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GEPPERT, ANDREAS, MARKUS KRADOLFER, and DIMITRIOS TOMBROS. "MARKET-BASED WORKFLOW MANAGEMENT." International Journal of Cooperative Information Systems 07, no. 04 (1998): 297–314. http://dx.doi.org/10.1142/s0218843098000143.

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This paper presents market-based workflow management, a novel approach to work-flow specification and execution which regards tasks performed in a workflow as goods traded in an electronic market. Information about expected cost and execution time is considered for activity specifications, and is used at runtime to execute workflows such that actual cost and execution times are balanced and optimized. To that end, task assignment follows a bidding protocol, in which each eligible processing entity specifies at which price and in which time interval it can execute the activity. The winner of a

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Misic, Dragan, Dragan Domazet, Miroslav Trajanovic, Miodrag Manic, and Milan Zdravkovic. "Concept of the exception handling system for manufacturing business processes." Computer Science and Information Systems 7, no. 3 (2010): 489–509. http://dx.doi.org/10.2298/csis090608006m.

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Business processes managed by information systems rarely operate according to the pre defined scenario. Exceptions to the pre defined workflows occur frequently. This especially applies to the production processes, which are very complex and require a constant human involvement. Workflow management systems should be capable of responding adequately to the exceptions caused by the process environment. Moreover, the response should be automatic, if possible, i.e. the workflow should automatically adapt to the new situation, or otherwise, the system administrator should be informed, so that he co

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Liu, Xumin, Moayad Alshangiti, Chen Ding, and Qi Yu. "Log sequence clustering for workflow mining in multi-workflow systems." Data & Knowledge Engineering 117 (September 2018): 1–17. http://dx.doi.org/10.1016/j.datak.2018.04.002.

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Shankar, Srinath, Ameet Kini, David J. DeWitt, and Jeffrey Naughton. "Integrating databases and workflow systems." ACM SIGMOD Record 34, no. 3 (2005): 5–11. http://dx.doi.org/10.1145/1084805.1084808.

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Oliver, Hilary, Matthew Shin, David Matthews, et al. "Workflow Automation for Cycling Systems." Computing in Science & Engineering 21, no. 4 (2019): 7–21. http://dx.doi.org/10.1109/mcse.2019.2906593.

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Zhuge, Hai. "Component-based workflow systems development." Decision Support Systems 35, no. 4 (2003): 517–36. http://dx.doi.org/10.1016/s0167-9236(02)00127-6.

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Basu, Amit, and Robert W. Blanning. "Metagraphs in workflow support systems." Decision Support Systems 25, no. 3 (1999): 199–208. http://dx.doi.org/10.1016/s0167-9236(99)00006-8.

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VAN DER AALST, W. M. P., P. BARTHELMESS, C. A. ELLIS, and J. WAINER. "PROCLETS: A FRAMEWORK FOR LIGHTWEIGHT INTERACTING WORKFLOW PROCESSES." International Journal of Cooperative Information Systems 10, no. 04 (2001): 443–81. http://dx.doi.org/10.1142/s0218843001000412.

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The focus of traditional workflow management systems is on control flow within one process definition. The process definition describes how a single case (i.e. workflow instance) in isolation is handled. For many applications this paradigm is inadequate. Interaction between cases to support communication and collaboration is at least as important. This paper introduces and advocates the use of interacting proclets, i.e. lightweight workflow processes. By promoting interactions to first-class citizens it is possible to model complex workflows in a more natural manner. In addition, the expressiv

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BAUER, THOMAS, THOMAS BEUTER, MICHAEL WEITNER, and THOMAS BÄR. "INTEGRATION OF ENGINEERING AND PRODUCTION PLANNING WORKFLOWS." Journal of Advanced Manufacturing Systems 04, no. 01 (2005): 37–52. http://dx.doi.org/10.1142/s0219686705000564.

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To improve the total product development process, engineering and production planning processes have to be integrated into one overall workflow. These processes are performed in different application systems, partially with workflow support (e.g. Enovia Workflow) and partially without (e.g. Manufacturing Hub). In order to achieve higher process reliability and performance as well as continuous information flow, the overall workflow shall be controlled by a general-purpose workflow management system (WfMS). Thus, the overall workflow may serve as a base for monitoring, reporting, and process vi

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Ngamakeur, Kan, and Sira Yongchareon. "A contract-based workflow execution framework for realizing artifact-centric business processes in a dynamic and collaborative environment." International Journal of Web Information Systems 16, no. 4 (2020): 427–49. http://dx.doi.org/10.1108/ijwis-04-2020-0020.

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Purpose The paper aims to study realization requirements for the flexible enactment of artifact-centric business processes in a dynamic, collaborative environment and to develop a workflow execution framework that can effectively address those requirements. Design/methodology/approach This study proposed a framework and contract-based, event-driven architecture design and implementation that can directly realize collaborative artifact-centric business processes in service-oriented architecture (SOA) without any model conversion. Findings The results show that the approach is feasible in presen

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Or, Calvin. "Pre-Implementation Case Studies Evaluating Workflow and Informatics Challenges in Private Primary Care Clinics for Electronic Medical Record Implementation." International Journal of Healthcare Information Systems and Informatics 10, no. 4 (2015): 56–64. http://dx.doi.org/10.4018/ijhisi.2015100104.

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Despite the potential benefits of electronic medical records (EMRs), their implementations have failed in a number of instances because of misfit between the technology design, work practices, workflows, and clinicians' needs. To promote effective design and implementation of an EMR system, the present pre-implementation study modeled the clinical workflow processes in private primary health care clinics and identified the associated gaps, weaknesses, and informatics challenges in the processes. Systematic field observations were performed to collect workflow data. Forty-three health care prof

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Sheth, Amit. "Workflow automation." ACM SIGMOD Record 24, no. 2 (1995): 469. http://dx.doi.org/10.1145/568271.223882.

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Tang, Jing, Jianbo Fu, Yunxia Wang, et al. "ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies." Briefings in Bioinformatics 21, no. 2 (2019): 621–36. http://dx.doi.org/10.1093/bib/bby127.

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Abstract Label-free quantification (LFQ) with a specific and sequentially integrated workflow of acquisition technique, quantification tool and processing method has emerged as the popular technique employed in metaproteomic research to provide a comprehensive landscape of the adaptive response of microbes to external stimuli and their interactions with other organisms or host cells. The performance of a specific LFQ workflow is highly dependent on the studied data. Hence, it is essential to discover the most appropriate one for a specific data set. However, it is challenging to perform such d

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Zheng, Changyou, Yi Yao, Song Huang, and Zhengping Ren. "Modeling Workflow Systems Constrained by Inputs and Outputs − An Approach Based on Petri Nets." Cybernetics and Information Technologies 15, no. 4 (2015): 27–41. http://dx.doi.org/10.1515/cait-2015-0052.

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Abstract Workflow systems are widely used in our daily life so that the validity, dependability and security with which they need to be assured are important. However, existing researches mainly focus on correctness validation, performance analysis and assignment scheduling, but the testing methods have been seldom suited. In this paper a formalized definition of workflows constrained by an input and output is presented, and based on that, a Petri Net-based model (I/O_WF_Net) is proposed. In I/O_WF_Net, the activities of the workflow can be modeled as transitions of a Petri Net, and the inputs

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GREFEN, PAUL, and JOCHEM VONK. "A TAXONOMY OF TRANSACTIONAL WORKFLOW SUPPORT." International Journal of Cooperative Information Systems 15, no. 01 (2006): 87–118. http://dx.doi.org/10.1142/s021884300600130x.

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Structured business processes are the veins of complex business organizations. Workflows have generally been accepted as a means to model and support these processes, be they interactive or completely automated. The fact that these processes require robustness and clear semantics has generally been observed and has led to the combination of workflow and transaction concepts. Many variations on this combination exist, leading to many approaches to transactional workflow support. No clear classification of these approaches has been developed, however, resulting in a badly understood field. To de

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Amrani, Moussa, Dominique Blouin, Robert Heinrich, Arend Rensink, Hans Vangheluwe, and Andreas Wortmann. "Multi-paradigm modelling for cyber–physical systems: a descriptive framework." Software and Systems Modeling 20, no. 3 (2021): 611–39. http://dx.doi.org/10.1007/s10270-021-00876-z.

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AbstractThe complexity of cyber–physical systems (CPSs) is commonly addressed through complex workflows, involving models in a plethora of different formalisms, each with their own methods, techniques, and tools. Some workflow patterns, combined with particular types of formalisms and operations on models in these formalisms, are used successfully in engineering practice. To identify and reuse them, we refer to these combinations of workflow and formalism patterns as modelling paradigms. This paper proposes a unifying (Descriptive) Framework to describe these paradigms, as well as their combin

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Hastedt-Marckwardt, Christian. "Workflow-Management-Systeme." Informatik-Spektrum 22, no. 2 (1999): 99–109. http://dx.doi.org/10.1007/s002870050129.

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Tripathi, Dipty, Shreya Banerjee, and Anirban Sarkar. "Formalization of business workflow with typed attributed graph." International Journal of Web Information Systems 14, no. 3 (2018): 372–98. http://dx.doi.org/10.1108/ijwis-05-2017-0044.

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Purpose Business process workflow is a design conceptualization to automate the sequence of activities to achieve a business goal with involved participants and a predefined set of rules. Regarding this, a formal business workflow model is a prime requisite to implement a consistent and rigorous business process. In this context, majority of the existing research works are formalized structural features and have not focused on functional and behavioral design aspects of business processes. To address this problem, this paper aims to propose a formal model of business process workflow called as

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Esch, Maria, Jinbo Chen, Stephan Weise, Keywan Hassani-Pak, Uwe Scholz, and Matthias Lange. "A Query Suggestion Workflow for Life Science IR-Systems." Journal of Integrative Bioinformatics 11, no. 2 (2014): 15–26. http://dx.doi.org/10.1515/jib-2014-237.

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Summary Information Retrieval (IR) plays a central role in the exploration and interpretation of integrated biological datasets that represent the heterogeneous ecosystem of life sciences. Here, keyword based query systems are popular user interfaces. In turn, to a large extend, the used query phrases determine the quality of the search result and the effort a scientist has to invest for query refinement. In this context, computer aided query expansion and suggestion is one of the most challenging tasks for life science information systems. Existing query front-ends support aspects like spelli

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