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snakemake-publishing

Lessons on taking a basic Snakemake workflow and sharing it with the community

https://github.com/tbooth/snakemake-publishing

Science Score: 44.0%

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Keywords

lesson snakemake workflows
Last synced: 4 months ago · JSON representation ·

Repository

Lessons on taking a basic Snakemake workflow and sharing it with the community

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Topics
lesson snakemake workflows
Created over 1 year ago · Last pushed 5 months ago
Metadata Files
Readme Contributing License Code of conduct Citation

README.md

Sharing and Publishing Snakemake Workflows

This lesson uses The Carpentries Workbench and is a work-in-progress extension to the existing Snakemake for Bioinformatics.

Info

This is currently a work in progress. Episodes will be added over the next few weeks.

Owner

  • Name: Tim Booth
  • Login: tbooth
  • Kind: user
  • Location: Edinburgh, UK
  • Company: Edinburgh Genomics

Citation (CITATION.cff) 

# This template CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to replace its contents
# with information about your lesson.
# Remember to update this file periodically,
# ensuring that the author list and other fields remain accurate.

cff-version: 1.2.0
title: Sharing and publishing Snakemake workflows
message: >-
  Please cite this lesson using the information in this file
  when you refer to it in publications, and/or if you
  re-use, adapt, or expand on the content in your own
  training material.
type: lesson
authors:
  - given-names: Timothy
    family-names: Booth
abstract: >-
    Work in progress.
license: CC-BY-4.0

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Dependencies

.github/workflows/pr-close-signal.yaml actions
  • actions/upload-artifact v4 composite
.github/workflows/pr-comment.yaml actions
  • actions/checkout v4 composite
  • carpentries/actions/check-valid-pr main composite
  • carpentries/actions/comment-diff main composite
  • carpentries/actions/download-workflow-artifact main composite
.github/workflows/pr-post-remove-branch.yaml actions
  • carpentries/actions/download-workflow-artifact main composite
  • carpentries/actions/remove-branch main composite
.github/workflows/pr-preflight.yaml actions
  • carpentries/actions/check-valid-pr main composite
  • carpentries/actions/comment-diff main composite
.github/workflows/pr-receive.yaml actions
  • actions/checkout v4 composite
  • actions/upload-artifact v4 composite
  • carpentries/actions/check-valid-pr main composite
  • carpentries/actions/setup-lesson-deps main composite
  • carpentries/actions/setup-sandpaper main composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
.github/workflows/sandpaper-main.yaml actions
  • actions/checkout v4 composite
  • carpentries/actions/setup-lesson-deps main composite
  • carpentries/actions/setup-sandpaper main composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite
.github/workflows/update-cache.yaml actions
  • actions/checkout v4 composite
  • carpentries/actions/check-valid-credentials main composite
  • carpentries/actions/update-lockfile main composite
  • carpentries/create-pull-request main composite
  • r-lib/actions/setup-r v2 composite
.github/workflows/update-workflows.yaml actions
  • actions/checkout v4 composite
  • carpentries/actions/check-valid-credentials main composite
  • carpentries/actions/update-workflows main composite
  • carpentries/create-pull-request main composite