Snakemake: Difference between revisions
From charlesreid1
No edit summary |
No edit summary |
||
| Line 17: | Line 17: | ||
A SingleCell RNASeq pre-processing pipeline built on snakemake: https://github.com/Hoohm/dropSeqPipe/blob/master/Snakefile | A SingleCell RNASeq pre-processing pipeline built on snakemake: https://github.com/Hoohm/dropSeqPipe/blob/master/Snakefile | ||
=Flags= | |||
[[Category:Pyenv]] | |||
[[Category:Python]] | |||
[[Category:Make]] | |||
Revision as of 05:28, 10 February 2018
Snakemake is a pythonic way of writing makefiles.
Snakemake works with distributions like anaconda to package and install dependencies. I recommend using Pyenv to keep things organized and separated out.
Links
Projects
Snakemake documentation: https://snakemake.readthedocs.io/en/stable/
Snakemake for Bioconda documentation: https://bioconda.github.io/recipes/snakemake/README.html
Snakemake Biocontainer: https://quay.io/repository/biocontainers/snakemake
Examples
A SingleCell RNASeq pre-processing pipeline built on snakemake: https://github.com/Hoohm/dropSeqPipe/blob/master/Snakefile