pipeline for analysis RNA-seq data.

Version: 0.2.0(BETA)

This pipeline include multi submodules: quality contral, alignment, call count, DEG analysis and enrichment.

git clone https://github.com/battlerb/RNASuite.git && cd RNASuite && Rscript rna-seq-pipeline/install_packages.R

Please download reference genome and annotation gtf file first and move them to /db/Genome/GRC*38/ folder, recommand Ensembl release.

Human： fasta gtf

Mouse： fasta gtf

Pig：fasta gtf

python3 wrapper.py -l sampleList.txt -p 8 -o output -s hsa -i fastq_folder/ -c compare.csv