Mercurial > repos > iuc > vsnp_build_tables

comparison vsnp_add_zero_coverage.py @ 2:a52b819aa990 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsnp commit 94e69abb568077267eb8b15ef624624e2899a750"
author iuc
date Wed, 30 Sep 2020 19:07:23 +0000
parents 0bc0009f9ea0
children efb86aade548
comparison
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1:0bc0009f9ea0 2:a52b819aa990
1 #!/usr/bin/env python 1 #!/usr/bin/env python
2 2
3 import argparse 3 import argparse
4 import multiprocessing 4 import multiprocessing
5 import os 5 import os
6 import pandas
7 import pysam
8 import queue 6 import queue
9 import re 7 import re
10 import shutil 8 import shutil
9
10 import pandas
11 import pysam
11 from Bio import SeqIO 12 from Bio import SeqIO
12 13
13 INPUT_BAM_DIR = 'input_bam_dir' 14 INPUT_BAM_DIR = 'input_bam_dir'
14 INPUT_VCF_DIR = 'input_vcf_dir' 15 INPUT_VCF_DIR = 'input_vcf_dir'
15 OUTPUT_VCF_DIR = 'output_vcf_dir' 16 OUTPUT_VCF_DIR = 'output_vcf_dir'