-
2
-
-
85020924551
-
Common Workflow Language v1.0
-
Amstutz, P. et al. Common Workflow Language v1.0. FigShare(2016). doi:10.6084/m9.figshare.3115156.v2
-
(2016)
Figshare
-
-
Amstutz, P.1
-
3
-
-
85020231027
-
A review of bioinformatic pipeline frameworks
-
Leipzig, J. A review of bioinformatic pipeline frameworks. Brief. Bioinform.(2016). doi:10.1093/bib/bbw020
-
(2016)
Brief. Bioinform.
-
-
Leipzig, J.1
-
4
-
-
84944190291
-
Challenges of Large-Scale Biomedical Workflows on the Cloud--A Case Study on the Need for Reproducibility of Results
-
IEEE
-
Kanwal, S., Lonie, A., Sinnott, R. O. & Anderson, C. Challenges of Large-Scale Biomedical Workflows on the Cloud--A Case Study on the Need for Reproducibility of Results. in 2015 IEEE 28th International Symposium on Computer-Based Medical Systems 220–225 (IEEE). doi:10.1109/CBMS.2015.28
-
2015 IEEE 28Th International Symposium on Computer-Based Medical Systems
, pp. 220-225
-
-
Kanwal, S.1
Lonie, A.2
Sinnott, R.O.3
Anderson, C.4
-
5
-
-
84949564442
-
A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing
-
Alioto, T. S. et al.A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing. Nat. Commun.6, 10001 (2015).
-
(2015)
Nat. Commun.
, vol.6
-
-
Alioto, T.S.1
-
9
-
-
84867306721
-
Snakemake--a scalable bioinformatics workflow engine
-
Köster, J. & Rahmann, S. Snakemake--a scalable bioinformatics workflow engine. Bioinformatics28, 2520–2522 (2012).
-
(2012)
Bioinformatics
, vol.28
, pp. 2520-2522
-
-
Köster, J.1
Rahmann, S.2
-
10
-
-
84987736156
-
Rapid and efficient analysis of 20,000 RNA-seq samples with Toil
-
John Vivian, Arjun Rao, Frank Austin Nothaft, Christopher Ketchum, Joel Armstrong, Adam Novak, Jacob Pfeil, Jake Narkizian, Alden D. Deran, Audrey Musselman-Brown, Hannes Schmidt, Peter Amstutz, Brian Craft, Mary Goldman, Kate Rosenbloom, Melissa Cline, Brian O’Connor, Megan Hanna, Chet Birger, W. James Kent, David A. Patterson, Anthony D. Joseph, Jingchun Zhu, Sasha Zaranek, Gad Getz, David Haussler, Benedict Paten. Rapid and efficient analysis of 20,000 RNA-seq samples with Toil. bioRxiv (2016). doi:10.1101/062497
-
(2016)
Biorxiv
-
-
Vivian, J.1
Rao, A.2
Nothaft, F.A.3
Ketchum, C.4
Armstrong, J.5
Novak, A.6
Pfeil, J.7
Narkizian, J.8
Deran, A.D.9
Musselman-Brown, A.10
Schmidt, H.11
Amstutz, P.12
Craft, B.13
Goldman, M.14
Rosenbloom, K.15
Cline, M.16
O’Connor, B.17
Hanna, M.18
Birger, C.19
James Kent, W.20
Patterson, D.A.21
Joseph, A.D.22
Zhu, J.23
Zaranek, S.24
Getz, G.25
Haussler, D.26
Paten, B.27
more..
-
11
-
-
84882310107
-
The Taverna workflow suite: Designing and executing workflows of Web Services on the desktop, web or in the cloud
-
Wolstencroft, K. et al.The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud. Nucleic Acids Res.41, W557–61 (2013).
-
(2013)
Nucleic Acids Res
, vol.41
, pp. W557-W561
-
-
Wolstencroft, K.1
-
12
-
-
77955801615
-
Galaxy: A comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences
-
Goecks, J., Nekrutenko, A., Taylor, J. & Galaxy Team. Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol.11, (2010).
-
(2010)
Genome Biol
, vol.11
-
-
Goecks, J.1
Nekrutenko, A.2
Taylor, J.3
Team, G.4
-
13
-
-
84923339542
-
Pegasus, a workflow management system for science automation
-
Deelman, E. et al.Pegasus, a workflow management system for science automation. Future Gener. Comput. Syst. 46, 17–35 (2015/5).
-
(2015)
Future Gener. Comput. Syst.
, vol.46
, Issue.5
, pp. 17-35
-
-
Deelman, E.1
-
14
-
-
84925108171
-
A workflow task scheduling algorithm based on the resources’ fuzzy clustering in cloud computing environment
-
Guo, F., Yu, L., Tian, S. & Yu, J. A workflow task scheduling algorithm based on the resources’ fuzzy clustering in cloud computing environment. Int. J. Commun. Syst.28, 1053–1067 (2015).
-
(2015)
Int. J. Commun. Syst.
, vol.28
, pp. 1053-1067
-
-
Guo, F.1
Yu, L.2
Tian, S.3
Yu, J.4
-
17
-
-
84898071607
-
Enabling scientific workflow sharing through coarse-grained interoperability
-
Terstyanszky, G. et al.Enabling scientific workflow sharing through coarse-grained interoperability. Future Gener. Comput. Syst. 37, 46–59 (2014/7).
-
(2014)
Future Gener. Comput. Syst.
, vol.37
, pp. 46-59
-
-
Terstyanszky, G.1
-
18
-
-
84866762812
-
-
Addison Wesley
-
Gamma, E., Helm, R., Johnson, R. & Vlissides, J. Design Patterns: Elements of Reusable Object-OrienteSoftware with Applying Uml and Patterns:An Introduction to Object-Oriented Analysis and Design and the Unified Process. (Addison Wesley, 2003).
-
(2003)
Design Patterns: Elements of Reusable Object-Orientesoftware with Applying Uml and Patterns:An Introduction to Object-Oriented Analysis and Design and the Unified Process
-
-
Gamma, E.1
Helm, R.2
Johnson, R.3
Vlissides, J.4
-
19
-
-
84879921397
-
-
PROVO-O: The PROV Ontology. (2013). Available at: https://www.w3.org/TR/prov-o. (Accessed: 20
-
(2013)
PROVO-O: The PROV Ontology
-
-
-
20
-
-
84923856585
-
Structuring research methods and data with the research object model: Genomics workflows as a case study
-
Hettne, K. M. et al. Structuring research methods and data with the research object model: genomics workflows as a case study. J. Biomed. Semantics5, 41 (2014).
-
(2014)
J. Biomed. Semantics5
, pp. 41
-
-
Hettne, K.M.1
-
21
-
-
84887264733
-
Ten simple rules for reproducible computational research
-
Sandve, G. K., Nekrutenko, A., Taylor, J. & Hovig, E. Ten simple rules for reproducible computational research. PLoS Comput. Biol.9, e1003285 (2013).
-
(2013)
Plos Comput. Biol.
, vol.9
-
-
Sandve, G.K.1
Nekrutenko, A.2
Taylor, J.3
Hovig, E.4
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