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.
Allele Frequencies
Allele Frequency estimation
- -doMaf [int]
INT=1 bfgs known minor
INT=2 EM known minor
INT=4 BFGS unknown minor
INT=8 EM unknown minor
INT=16 frequencies from genotype probabilities
Allele frequencies from genotype likelihoods
The allele frequency estimators are described in citation. The