Install: Need some Library such as screed regex.
Step1 : python barseq.py -i data/sequence -b barcode_gene_file.csv -r testRes
arg1: barseq.py is script arg2 with -i: path for all fastq files containing folder arg3 with -b : barcode to gene mapping (for example see: barcode_gene_file.csv) arg4 with -r : user based result folder (testRes); you have to remove folder if script fails.
Step 2: remove all zero counts
python remove_zero_barseq_count.py testRes/barcode_counts_table.csv Result_after_removing_zero.csv
arg1: This file will be genrated after step 1. arg2: Desired file.
for i in ls *md5;do md5sum -c $i; done