CrypticIBDcheck 0.3-3 – Identifying Cryptic Relatedness in Genetic Association Studies

CrypticIBDcheck 0.3-3

:: DESCRIPTION

CrypticIBDcheck can be used to identify pairs of closely-related subjects based on genetic marker data from single-nucleotide polymorphisms (SNPs). The package is able to accommodate SNPs in linkage disequibrium (LD), without the need to thin the markers so that they are approximately independent in the population. Sample pairs are identified as related by superposing their estimated identity-by-descent (IBD) coefficients on plots of IBD coefficients for pairs of simulated subjects from one of several common close relationships.

::DEVELOPER

Graham & McNeney Labs

: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 CrypticIBDcheck

:: MORE INFORMATION

Citation

Source Code Biol Med. 2013 Feb 6;8(1):5. doi: 10.1186/1751-0473-8-5.
CrypticIBDcheck: an R package for checking cryptic relatedness in nominally unrelated individuals.
Nembot-Simo A, Graham J, McNeney B.

Kinship 20091112 – Estimate Kinship Coefficients for Case-control analyses in the presence of Cryptic Relatedness

Kinship 20091112

:: DESCRIPTION

Kinship is a software to carry out computations to estimate kinship coefficients for case-control analyses in the presence of cryptic relatedness

::DEVELOPER

Ellen M. Wijsman

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Perl

:: DOWNLOAD

 Kinship

:: MORE INFORMATION

Citation:

Genet Epidemiol. 2009 Dec;33(8):668-78. doi: 10.1002/gepi.20418.
Case-control association testing in the presence of unknown relationships.
Choi Y1, Wijsman EM, Weir BS.