Snakemake workflow: RNA-seq-from-SRR-single

A Snakemake workflow for RNA-seq pipeline using fastq-dump, STAR and samtools for single-end reads.

Usage

The usage of this workflow is described in the Snakemake Workflow Catalog.

If you use this workflow in a paper, don't forget to give credits to the authors by citing the URL of this (original) RNA-seq-from-SRR-singlesitory and its DOI (see above).

TODO

• Replace rochevin and RNA-seq-from-SRR-single everywhere in the template (also under .github/workflows) with the correct RNA-seq-from-SRR-single name and owning user or organization.
• Replace <name> with the workflow name (can be the same as RNA-seq-from-SRR-single).
• Replace <description> with a description of what the workflow does.
• The workflow will occur in the snakemake-workflow-catalog once it has been made public. Then the link under "Usage" will point to the usage instructions if rochevin and RNA-seq-from-SRR-single were correctly set.