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