ILRI Research Computing

This page is read only. You can view the source, but not change it. Ask your administrator if you think this is wrong.

====== shapeit ======
SHAPEIT is a fast and accurate method for estimation of haplotypes (aka phasing) from genotype or sequencing data.

===== Information =====

  * Version: 2.904
  * Added: July, 2023
  * Link: https://mathgen.stats.ox.ac.uk/genetics_software/shapeit/shapeit.html

===== Usage =====

See which versions are available:
<code>$ module avail shapeit</code>

Load one version into your environment and run it:
<code>$ module load shapeit/2.904
$ shapeit --help</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>$ cd /tmp
$ wget https://mathgen.stats.ox.ac.uk/genetics_software/shapeit/shapeit.v2.r904.glibcv2.17.linux.tar.gz
$ sudo mkdir -p /export/apps/shapeit/2.904
$ sudo cp -r shapeit.v2.904.3.10.0-693.11.6.el7.x86_64/* /export/apps/shapeit/2.904</code>