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1. hap-ibd hap-ibd Public

   The hap-ibd program detects identity-by-descent segments in phased genotype data.

   Java 43 8

2. flare flare Public

   The flare program performs local ancestry inference

   Java 31 7

3. sprime sprime Public

   The SPrime program identifies variants that are introgressed from archaic populations.

   Java 22 3

4. ukb-phasing ukb-phasing Public

   A pipeline for phasing UK Biobank whole genome sequence data

   Shell 14 5

5. ibd-ends ibd-ends Public

   The ibd-ends program performs probabilistic estimation of identity-by-descent segment endpoints.

   Java 10

6. ibd-cluster ibd-cluster Public

   The ibd-cluster program uses multi-individual identity by descent to cluster haplotypes

   Java 4