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ANGSD / angsd

Program for analysing NGS data.
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-doBcf output corrupted? #600

Open RyanEckert opened 1 year ago

RyanEckert commented 1 year ago

Using v 0.938 and 0.940 I am having issues with .bcf output

The file is not human readable (it should be though?). The file is not gzipped, as .vcf files were in previous versions. However if I gunzip (or zcat) the header info and samples become readable, but all the variant information is still not human readable.

I have used .bcf output on earlier versions, so I'm not sure if something is corrupted in these releases or on my HPC.

TonyKess commented 10 months ago

bcf's shouldn't be human readable, it's binary variant call format. You can just do bcftools view > and you should get a human readable vcf out