From: Congruence as a measurement of extended haplotype structure across the genome
Feature | ExHap | GERMLINE | Sweep/EHH |
---|---|---|---|
   Requires phased chromosomes as input | yes | yes | yes |
   Handles missing data | yes | no | no |
   Allows small number of mismatches (fuzzy matching) | yes | yes1 | no |
   Designed to analyze a large number of SNPs (100 s to 1000 s) | yes | yes | no |
   Supports genetic distance | no | yes | yes |
   Outputs aggregate/region-wide metrics | yes | no2 | yes3 |
   Outputs chromosome level detail | yes | yes4 | no |