snakemake
Projects with this topic
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A GA4GH compliant Workflow-Execution-Service (WES) for Nextflow and Snakemake.
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This project shows an example of how a collaborative collected FAIR dataset can be extended (using Merge Requests), curated (using automated testing), analyzed (using a Snakemake workflow), and visualized (using Python).
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Deployment code for WESkit based on Docker-Swarm.
IMPORTANT: (1) This is for development only, (2) is not maintained and will be archived to be replaced by the k8s/helm deployment.
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A home repository for my M1 internship at LaMME in 2024 on FTAG-Finder, a pipeline to identify gene Families and Tandemly Arrayed Genes
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A workflow for gene families and tandemly arrayed genes detection
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AUMC RNAseq pipeline A snakemake made to perform QC + alignement + quantifications of reads coming from RNAseq experiments.
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Provides basic language support and snippets for Snakemake files (Snakefile, .smk) to Visual Studio Code. https://marketplace.visualstudio.com/items?itemName=alping.vscode-snakemake
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Snakemake RNAseq processing pipeline (STAR or Salmon) via a SLURM cluster
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A cookiecutter template for Snakemake workflows
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