WhatsHap

Description

whatshap website

WhatsHap is a read-based phasing tool. In the typical case, it expects 1) a VCF file with variants of an individual and 2) a BAM or CRAM file with sequencing reads from that same individual. WhatsHap uses the sequencing reads to reconstruct the haplotypes and then writes out the input VCF augmented with phasing information.

Environment Modules

Run module spider whatshap to find out what environment modules are available for this application.

Environment Variables

Citation

If you publish research that uses whatshap you have to cite it as follows:

https://whatshap.readthedocs.io/en/latest/howtocite.html

Categories

biology, phylogenetics