This is a test version of Biostars. For the public version, visit https://www.biostars.org.
Extract variability between coordinates

Hi all,

Could anyone suggest how to extract variability within a range, i.e. candidate regions, from multiple vcf files?

I have exome data from a number of samples, as well as SNP array data, and I'm looking for recessive variability from the exome data within generated runs of homozygosity.

Thanks for your time

vcf genotyping-array exome variant
• 2,277 views • link
updated by Ram Ram • written by egustavsson • egustavsson

1 answer

Tabix can help you if you are looking for variants in a given genomic region (http://samtools.sourceforge.net/tabix.shtml)

• 0 views • link
updated by Ram Ram • written by Ashutosh Pandey Ashutosh Pandey

Thanks Ashutosh, tabix will do exactly what I'm looking for.

• 0 views • link
updated by Ram Ram • written by egustavsson • egustavsson

Ok great. Moving it to answer.

• 0 views • link
updated by Ram Ram • written by Ashutosh Pandey Ashutosh Pandey

Log in to answer this question.

More posts like this