shapeit

shapeit3

Web: https://jmarchini.org/shapeit3/

It could be directly used with download from Dropbox; one executable requires boost 1.60.

./shapeit3.r884.1
module load boost/1.60/gcc-5.2.0-python-2.7.10
./shapeit3.r884.2

shapeit4

See https://odelaneau.github.io/shapeit4/.