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Pipeline for SNP analysis
Pipeline V2 (from Fasta)
Pipeline V3 (from VCF)
SNiPlay Galaxy workflows
Tools
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VCFtools (stats)
Polyploid analysis
SNiPloid
Chromosome Viewer
Chromosome Viewer
SNP density
Diversity analysis
EggLib
VCFtools (sliding window)
Population stratification
sNMF
Admixture
IBD Kinship (Tassel)
PCA / IBS matrix (plink)
Distance tree (FastME)
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GWAS Analysis
Others
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Download public datasets
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SNP Queries V3
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Manual pipeline V2
Manual pipeline V3
How to cite
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sNMF
1. Load your data
2. Run
3. Results
K min
K max
Please cite:
Frichot E, Mathieu F, Trouillon T, Bouchard G, Francois O.
Fast and efficient estimation of individual ancestry coefficients.
Genetics. 2014 Apr;196(4):973-83. (
PubMed
)
