Map a filtered 10x V3 RNA cell bacode whitelist to it's corresponding ADT whitelist.

convert_10x_v3.py

import csv


filtered_set = set()

with open('filtered_RNA_V3.txt','r') as fitlered_whitelist:
    csv_reader = csv.reader(fitlered_whitelist, delimiter=',')
    for cell_barcode in csv_reader:
        filtered_set.add(cell_barcode[0].strip('-1').strip())


with open('mapped_ADT_V3.txt','w') as outfile:
    with open('3M-february-2018.txt') as csv_file:
        csv_reader = csv.reader(csv_file, delimiter='\t')
        
        for row in csv_reader:
            
            if row[0].strip() in filtered_set:
                outfile.write('{}\n'.format(row[1].strip()))