Tool:simplify the output of a vcf file using vcf_simplify-v1.py
0
0
Entering edit mode
3.3 years ago
kirannbishwa01 ★ 1.3k

There exits several tools that help mine, filter and manipulate the data from VCF file. I still felt that there was a tool missing that can simplify the data represented in the VCF input file to a table file. Most of the VCF simplification are for more population tags, fields and one sample per VCF.

vcf_simplify.py https://github.com/everestial/vcf_simplify , is a python3 parser that helps simplify the data representation of any type of fields from INFO and FORMAT of every SAMPLE of interest. This tool is written in python3 with cyvcf2 https://github.com/brentp/cyvcf2/ , so it is considerably faster than pyVCF module.

Hope you like it.

vcf table python variants Tool • 774 views
ADD COMMENT

Login before adding your answer.

Traffic: 1729 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6