ANGSD: Analysis of next generation Sequencing Data

Latest tar.gz version is (0.938/0.939 on github), see Change_log for changes, and download it here.


From angsd
Jump to navigation Jump to search

There has been some confusion about the versions of ANGSD.

  • Even versions are freezes from the last odd giversion
  • Odd versions are git versions. Once there has been enough commits we will increment and make a release.

Download and Installation

To download and use ANGSD you need to download the htslib and the angsd source folder

You can either download the angsd0.938.tar.gz which contains both. [1]

Or you can use github for the latest version of both htslib and angsd

Earlier versions from here: And here:


Download and unpack the tarball, enter the directory and type make. Users on a mac computer, can use curl instead of wget.


The software can be compiled using make.

tar xf angsd0.940.tar.gz
cd htslib;make;cd ..
cd angsd
make HTSSRC=../htslib
cd ..

The executable then located in angsd/angsd.

Install from github

To install CRAM support you also need to install htslib and can be done using the following commands

git clone --recursive
git clone 
cd htslib;make;cd ../angsd ;make HTSSRC=../htslib

Using htslib submodule

git clone 
cd angsd

Systemwide installation of htslib

make HTSSRC="systemwide"