Snk: A Snakemake CLI and Workflow ManagementSystem

Snk (pronounced "snek") is a workflow management tool designed to simplify the use of Snakemake workflows by dynamically generating command-line interfaces (CLIs).Snk allows complex Snakemake workflows to be used as modular components in larger systems that can be executed and managed from the command line with minimal overhead.This enables researchers and developers to integrate and manage sophisticated workflows seamlessly.Snk significantly improves the interoperability and accessibility of Snakemake workflows, making it easier to use and share computational pipelines in various research fields.

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Publication Details

Journal
The Journal of Open Source Software
Published
2024-11-25
DOI
https://doi.org/10.21105/joss.07410
Citations
1
Primary Topic
Scientific Computing and Data Management
Type
article
Field-Weighted Citation Impact
1.05
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article

Snk: A Snakemake CLI and Workflow ManagementSystem

Wytamma Wirth, Robert Turnbull, Simon J. Mutch
1 citations
The Journal of Open Source Software
Scientific Computing and Data Management
1.05
article

Snk: A Snakemake CLI and Workflow ManagementSystem

Wytamma Wirth, Robert Turnbull, Simon J. Mutch
article en
1 citations

Abstract

Snk (pronounced "snek") is a workflow management tool designed to simplify the use of Snakemake workflows by dynamically generating command-line interfaces (CLIs).Snk allows complex Snakemake workflows to be used as modular components in larger systems that can be executed and managed from the command line with minimal overhead.This enables researchers and developers to integrate and manage sophisticated workflows seamlessly.Snk significantly improves the interoperability and accessibility of Snakemake workflows, making it easier to use and share computational pipelines in various research fields.

The Journal of Open Source SoftwareVol. 9(103)
The University of Melbourne (AU), Peter Doherty Institute (AU)
Openalex Percentile: Top 12%
Scientific Computing and Data Management
1.05
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