Phi

PHI test and other tests of recombination

Install

All systems
curl cmd.cat/Phi.sh
Debian Debian
apt-get install phipack
Ubuntu
apt-get install phipack
image/svg+xml Kali Linux
apt-get install phipack
Windows (WSL2)
sudo apt-get update sudo apt-get install phipack
Raspbian
apt-get install phipack
Dockerfile
dockerfile.run/Phi

phipack

PHI test and other tests of recombination

The PhiPack software package implements a few tests for recombination and can produce refined incompatibility matrices as well. Specifically, PHIPack implements the 'Pairwise Homoplasy Index', Maximum Chi2 and the 'Neighbour Similarity Score'. The program Phi can be run to produce a p-value of recombination within a data set and the program profile can be run to determine regions exhibiting strongest evidence mosaicism.