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GERMLINE

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An algorithm for discovering long shared segments of Identity by Descent (IBD) between pairs of individuals in a large population. GERMLINE takes as input genotype or haplotype marker data for individuals (as well as an optional known pedigree) and generates a list of all pairwise segmental sharing. GERMLINE uses a novel hashing & extension algorithm which allows for segment identification in haplotype data in time proportional to the number of individuals.

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GERMLINE classification

GERMLINE specifications

Software type:
Package/Module
Restrictions to use:
None
Computer skills:
Advanced
Stability:
Stable
Interface:
Command line interface
Operating system:
Unix/Linux
Version:
1.5.1
Maintained:
Yes

GERMLINE distribution

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No versioning.

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Publications

Institution(s)

Department of Computer Science, Columbia University, New York, NY, USA

Link to literature

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