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.

Citing angsd

From angsd
Revision as of 12:28, 24 September 2012 by Albrecht (talk | contribs)
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Currently there is not publication for angsd. However, many of the method implimented here are published.

    • Methods**

allele estimation from genotype likelihoods

- doMaf

kim2011

SNP calling based on genotype likelihoods kim2011

Genotype likelihoods

-GL 1

same as in samtools Li2010

-GL 2

same as in gatk

-GL 3

same as in soapSNP

-GL 4
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