scikit-allel
  • Data structures
    • In-memory data structures
      • GenotypeArray
      • HaplotypeArray
      • AlleleCountsArray
      • VariantTable
      • FeatureTable
      • SortedIndex
      • UniqueIndex
      • SortedMultiIndex
      • Utility functions
    • Compressed arrays (bcolz)
      • GenotypeCArray
      • HaplotypeCArray
      • AlleleCountsCArray
      • VariantCTable
      • FeatureCTable
      • Utility functions
  • Statistics
    • Diversity & divergence
    • F-statistics
    • Hardy-Weinberg equilibrium
    • Linkage disequilibrium
    • Pairwise distance and ordination
    • Principal components analysis
    • Admixture tests
    • Window utilities
    • Preprocessing utilities
  • Plotting functions
    • Variant location
    • Pairwise distance
    • Linkage disequilibrium
  • Input/output utilities
  • Release notes
    • v0.15
    • v0.14
    • v0.12
    • v0.11
    • v0.10
    • v0.9
    • v0.8
    • v0.7
    • v0.6
 
scikit-allel
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StatisticsΒΆ

Statistical functions for use with variant call data.

  • Diversity & divergence
  • F-statistics
  • Hardy-Weinberg equilibrium
  • Linkage disequilibrium
  • Pairwise distance and ordination
  • Principal components analysis
  • Admixture tests
  • Window utilities
  • Preprocessing utilities
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© Copyright 2015, Alistair Miles.

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