Quality Control, Mapping and Reads Count for RNA-Seq Analysis
-
Updated
Mar 29, 2022 - R
Quality Control, Mapping and Reads Count for RNA-Seq Analysis
A cli for running multiple qsub jobs with HTSeq's htseq-count on a cluster.
RNA seq pipeline designed for paired end reads using HTSEQ for producing files needed for visualizing transcriptomic data with DESEQ2
Attempt at snakemake pipeline. Pyflow was forked from https://github.com/crazyhottom but the Snakefile infrastructure and rule calling was inspired by https://github.com/snakemake-workflows
SLURM job temps @UAlbany
Build Docker container for HTSeq and (optionally) convert to Apptainer/Singularity
Add a description, image, and links to the htseq-count topic page so that developers can more easily learn about it.
To associate your repository with the htseq-count topic, visit your repo's landing page and select "manage topics."