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.
Installation: Difference between revisions
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(Created page with "=Download= The source code is avaible as a tarball and be download here [http://popgen.dk/software/download/angsd/angsd0.3.tar.gz] =Install= Unpack the tarball ===Unix=== Th...") |
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zlib needs to be installed on your system. | zlib needs to be installed on your system. | ||
=Misc folder= | |||
Misc folder contains: | |||
1. simnextgen a program for simulating genotype likelihoods | |||
2. getUnfolded, simnextgen only outputs the true folded frequency spectra. getUnfolded uses the "true" genotypes to estimate the unfolded spectra. | |||
3. testfolded/optimSFS uses the .sfs output from -realSFS 1 to estimate the site frequency spectra polarized to the ancestral type. | |||
Revision as of 16:24, 18 June 2012
Download
The source code is avaible as a tarball and be download here [1]
Install
Unpack the tarball
Unix
The software can be compiled using make
cd angsd0.3 make
zlib needs to be installed on your system.
Misc folder
Misc folder contains:
1. simnextgen a program for simulating genotype likelihoods 2. getUnfolded, simnextgen only outputs the true folded frequency spectra. getUnfolded uses the "true" genotypes to estimate the unfolded spectra. 3. testfolded/optimSFS uses the .sfs output from -realSFS 1 to estimate the site frequency spectra polarized to the ancestral type.