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GERMLINE is an algorithm for inferring long shared segments of Identity by Descent (IBD) between pairs of individuals in a large population

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GERMLINE

GERMLINE is an algorithm to infer long shared segments of Identity by Descent (IBD) between pairs of individuals in a large population. GERMLINE is very fast.

GERMLINE takes as input (PLINK format) haplotype marker data for individuals and generates a list of all pairwise segmental sharing.

  • To compile GERMLINE run make in the download directory, or use the precompiled binary in bin/germline.
  • To run GERMLINE use: germline -input [ped] [map] -output [out].
  • See http://gusevlab.org/projects/germline/ for full documentation.

GERMLINE was developed in Itsik Pe'er's Lab of Computational Genetics at Columbia University. If you use GERMLINE in a published analysis, please cite Gusev et al. 2008 Genome Res doi: 10.1101/gr.081398.108.

GERMLINE is licensed under Apache.

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GERMLINE is an algorithm for inferring long shared segments of Identity by Descent (IBD) between pairs of individuals in a large population

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