main script : BS-seq-processing.py
Linux, Python 3+, pandas, numpy
A bisulfite-seq data workflow.
-i : genes info (split by tab)
-o : output name
-f : gene annotation file (eg : gtf)
-s : bismark file ( the output file from step bismark_methylation_extractor
: "XXX_context_test_dataset.fastq_bismark.txt" )
-d : divide genes into (default : 1)