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Whole-genome Association Mapping Machina

eagle-i ID

http://eagle-i.itmat.upenn.edu/i/0000013d-4173-d1bc-ae62-bb6880000000

Resource Type

  1. Algorithmic software suite

Properties

  1. Uses algorithmic software component
    Integrated Haplotype Score calculator
  2. Resource Description
    "WHAMM is a free, open-source analysis package designed to estimate patterns of homozygosity in whole genome data sets, as well as perform a range of association analyses and summaries on the resultant output. Additional functionality will be added to also scan whole-genome platform data for signatures of extended haplotype homozygosity consistent with positive selection, summarized with the integrated Haplotype Score (iHS), though this functionality remains to be implemented."
  3. Additional Name
    WHAMM
  4. Used by
    Voight Laboratory
  5. Version
    0.14a
  6. Operating System
    Linux
  7. Operating System
    Unix
  8. Data Input
    Phased genotype data
  9. Data Input
    Unphased genotype data
  10. Data Input
    Marker map
  11. Data Input
    Sample information
  12. Data Input
    Phenotype data
  13. Data Input
    Phased data loader
  14. Data Input
    Keeplist
  15. Data Output
    Log
  16. Data Output
    Segment map
  17. Data Output
    Haplotype frequencies
  18. Data Output
    Homozygosity probabilities
  19. Data Output
    Forward/Backward painting
  20. Data Output
    Estimated homozygosity parameters
  21. Data Output
    Homozygosity dosage file
  22. Data Output
    Sample listings
  23. Data Output
    Basic association results
  24. Data Output
    Regression association results
  25. Software purpose
    Population genetics analysis objective
  26. Website(s)
    http://coruscant.itmat.upenn.edu/whamm/index.html
  27. Developed by
    Voight, Benjamin F., Ph.D.
  28. Algorithm used
    Fischer's Exact Test
  29. Coded in
    Perl
 
RDFRDF
 
Provenance Metadata About This Resource Record
  1. workflow state
    Published
  2. contributor
    fcoldren
  3. created
    2013-03-06T15:48:39.919-05:00
  4. creator
    fcoldren
  5. modified
    2013-03-15T13:59:57.641-04:00

Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016