<![CDATA[BOL: HaploTypo: a variant-calling pipeline for phased genomes]]> https://bioinformaticsonline.com/bookmarks/view/40409/haplotypo-a-variant-calling-pipeline-for-phased-genomes? https://bioinformaticsonline.com/bookmarks/view/40409/haplotypo-a-variant-calling-pipeline-for-phased-genomes Thu, 19 Dec 2019 07:33:40 -0600 https://bioinformaticsonline.com/bookmarks/view/40409/haplotypo-a-variant-calling-pipeline-for-phased-genomes <![CDATA[HaploTypo: a variant-calling pipeline for phased genomes]]> An increasing number of phased (i.e. with resolved haplotypes) reference genomes are available. However, most genetic variant calling tools do not explicitly account for haplotype structure. Here, we present HaploTypo, a pipeline tailored to resolve haplotypes in genetic variation analyses. HaploTypo infers the haplotype correspondence for each heterozygous variant called on a phased reference genome.

Availability and Implementation

HaploTypo is implemented in Python 2.7 and Python 3.5, and is freely available at https://github.com/gabaldonlab/haplotypo, and as a Docker image.

Address of the bookmark: https://github.com/gabaldonlab/haplotypo

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