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PCA/Eigensoft/Eigenstrat
Fst
LD pruning in R
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Main
ANGSD
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NgsRelate
Website
PCAngsd
PCA, selection and inbreeding for NGS data
evalAdmix
evaluate admixture fit
download
Example
Input files
NGSadmix
Population Structure for NGS data
download
Example
Input files
Tutorial
asaMap
Ancestry-specific association mapping in admixed populations
download
Example
Input files
Citation
fastNGSadmix
admixture proportions and principal component analysis of a single NGS sample
download
Input files
Running fastNGSadmix
PCA
Making a reference panel
Human reference panels
Citation
relateAdmix
Relatedness estimation for admixed individuals
download
Example
LDadmix
Relate
Local IBD relatedness
download
Manual
citation
Logs
BAMSE
Bayesian Association of multiple SNPs
CATS
power for two stage GWAS
R scripts
various R scripts
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