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List of haplotype estimation and genotype imputation software information


This is a list of notable software for haplotype estimation and genotype imputation.

Alphabetical order:

  • AlphaImpute
  • Beagle
  • cnF2freq
  • DAGPHASE
  • Eagle
  • fastPHASE
  • FILLIN (part of TASSEL)
  • FImpute
  • findhap
  • FSFHap (part of TASSEL)
  • HAPI-UR
  • IMPUTE2
  • LDMIP
  • LinkImpute
  • LinkImputeR
  • MACH
  • PHASE
  • PlantImpute
  • SHAPEIT2
  • SHAPEIT3
  • SHAPEIT4
  • SimWalk2
  • SNPHAP
  • STITCH
  • WhatsHap
  • HapCUT2
  • Hap10
  • H-PoP

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