Python library for parsing bcftools stats file
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3.7 years ago
William ★ 4.8k

Did someone already create a python library for parsing bcftools stats output files?

BCFTools stats generates a txt stats file from VCF/BCF files. These text stats files contains some tab delimited tables and key value pairs that I would like to acces programmatically in python.

Depending on the bcftoools stats arguments used the content of the stats file can be different: http://www.htslib.org/doc/bcftools.html#stats

It would be nice if this already exists and don't need to write a bcftools stats parser myself.

bcftools • 1.8k views
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pyvcf is parsing VCF files, I am looking for a parser for VCF/BCF stats files generated by bcftools stats.

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