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Bioinformatic pipelines in Python with Leaf
11 references·0 citing·34 second hop
Bioinformatic pipelines in Python with Leaf (2013)Bioinformatic pipelines in Python with Le…The case for open computer programs (2012)The case for open computer pr…Bpipe: a tool for running and managing bioinformatics pipelines (2012)Bpipe: a tool for running and…Conveyor: a workflow engine for bioinformatic analyses (2011)Conveyor: a workflow engine f…Ruffus: a lightweight Python library for computational pipelines (2010)Ruffus: a lightweight Python …Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences (2010)Galaxy: a comprehensive appro…Provenance and scientific workflows (2008)Provenance and scientific wor…Automation of in-silico data analysis processes through workflow management systems (2007)Automation of in-silico data …Taverna: a tool for building and running workflows of services (2006)Taverna: a tool for building …Kepler: an extensible system for design and execution of scientific workflows (2004)Kepler: an extensible system …Kepler: An Extensible System for Design and Execution of Scientific Workflows (2004)Kepler: An Extensible System …Biopipe: A Flexible Framework for Protocol-Based Bioinformatics Analysis (2003)Biopipe: A Flexible Framework…Challenges in Integrating Biological Data Sources (1995)A classification of tasks in bioinformatics (2001)Creating a bioinformatics nation (2002)EGene: a configurable pipeline generation system for automated sequence analysis (2005)Investigating reproducibility and tracking provenance – A genomic workflow case study (2017)Workflow mining: discovering process models from event logs (2004)A survey of data provenance in e-science (2005)Scientific workflow management and the Kepler system (2005)Artifact-Centric Business Process Models: Brief Survey of Research Results and Challenges (2008)The Open Provenance Model: An Overview (2008)A survey on provenance: What for? What form? What from? (2017)Taverna: a tool for the composition and enactment of bioinformatics workflows (2004)SUSHI: an exquisite recipe for fully documented, reproducible and reusable NGS data analysis (2016)Playing Super Mario 64 increases hippocampal grey matter in older adults (2017)Design Patterns: Elements of Reusable Object-Oriented Software (1994)Bioconductor: open software development for computational biology and bioinformatics (2004)Snakemake—a scalable bioinformatics workflow engine (2012)The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update (2016)Nextflow enables reproducible computational workflows (2017)The secret lives of experiments: Methods reporting in the fMRI literature (2012)ITK: enabling reproducible research and open science (2014)A Novel, Open Access Method to Assess Sleep Duration Using a Wrist-Worn Accelerometer (2015)β-catenin mediates stress resilience through Dicer1/microRNA regulation (2014)Ten Simple Rules for Developing Usable Software in Computational Biology (2017)Mobyle: a new full web bioinformatics framework (2009)The iPlant Collaborative: Cyberinfrastructure for Plant Biology (2011)FireWorks: a dynamic workflow system designed for high‐throughput applications (2015)Characterization of scientific workflows (2008)The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud (2013)The impact of workflow tools on data-centric research (2009)Armadillo 1.1: An Original Workflow Platform for Designing and Conducting Phylogenetic Analysis and Simulations (2012)The TimeStudio Project: An open source scientific workflow system for the behavioral and brain sciences (2015)Tools and techniques for computational reproducibility (2016)The future of scientific workflows (2017)
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References

  • 2010Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences3,455 cited
  • 2006Taverna: a tool for building and running workflows of services944 cited
  • 2004Kepler: An Extensible System for Design and Execution of Scientific Workflows745 cited
  • 2012The case for open computer programs537 cited
  • 2008Provenance and scientific workflows470 cited
  • 2004Kepler: an extensible system for design and execution of scientific workflows429 cited
  • 2012Bpipe: a tool for running and managing bioinformatics pipelines159 cited
  • 2010Ruffus: a lightweight Python library for computational pipelines135 cited
  • 2003Biopipe: A Flexible Framework for Protocol-Based Bioinformatics Analysis85 cited
  • 2007Automation of in-silico data analysis processes through workflow management systems63 cited
  • 2011Conveyor: a workflow engine for bioinformatic analyses39 cited

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