Tool:VCF2PopTree: build a phylogenetic tree from a VCF file

Question

[sankar2004]

A phylogenetic tree can be constructed directly from a VCF file.

The simple software VCF2PopTree reads a VCF file and builds a tree in few minutes.

It also produces pairwise distance matrix from a VCF file, which can then be used as an input file for the popular software such as MEGA.

Software: https://github.com/sansubs/vcf2pop

Paper: VCF2PopTree: a client-side software to construct population phylogeny from genome-wide SNPs. PeerJ, Vol.7, e8213; 2019

[hugo.avila]

Thanks ! This is exactly what i was looking for !

Answer 1

[hewm2008]

https://github.com/hewm2008/VCF2Dis VCF2Dis is more faster with low mem

vcf 2 p-dis.mat and p-dis.nwk : only one step1

VCF2Dis have been cited in more than 150 times by searching against google scholar