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
This is an automated workflow pipeline for analyzing and processing Bulk-RNA seq data, implemented primarily in bash, python and R, and wrapped in a NextFlow workflow to characterize the gene landscape in the samples.
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
This is an automated workflow pipeline for analyzing and processing Bulk-RNA seq data, implemented primarily in bash, python and R, and wrapped in a NextFlow workflow to characterize the gene landscape in the samples.
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