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Authors
aalbrechtsen edited this page Sep 7, 2026
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Major programmer
Thorfinn Korneliussen thorfinn@binf.ku.dk
Minor programmer
anders albrechtsen albrecht@binf.ku.dk
Fililpe Vieira has been implementing changes to the frequency estimator. analysisMaf.cpp -> analysisMaf.inbreed.cpp some changes in angsd_realSFS.cpp And the analysisHWE.cpp
Matteo has been implementing the Fst and PCA which uses output from angsd.
Other people include
Rasmus Nielsen rasmus@binf.ku.dk
Line Skotte flotte@skotte.dk
Some code is very 'inspired' by SAMtools (bamfile reading GL -1). The code for the SOAPsnp GL estimator is also very inspired by SOAPsnp
Pages
Population genetics
Population structure
- Admixture
- Fst
- ABBABABA (D-stat)
- ABBABABA (multipop)
- Population branch statistics (pbs)
- PCA
- PCA (sampling approach)
- Linkage disequilibrium
Medical genetics
IBD/IBS
Summaries
SNPs and genotypes
- Genotypes likelihoods
- Major and Minor
- Allele frequencies
- Genotype calling
- Haploid calling
- SNP Calling
Output
Misc/util programs
Program structure
About ANGSD