New features
-
Added metafounders to pedigree ({pr}
23, {user}RosCraddock, {user}XingerTang) -
Fix X chromosome's generateSegregation and errorMatrix ({pr}
24, {user}AprilYUZhang)
Bug fixes:
-
Fix pedigree founder error - sire genotype status was used twice instead of sire and dam genotype status. ({issue}
12, {user}augustusgrant) -
Fix individual order in output with the
-onlykeyedoption, reported in AlphaPeel (AlphaGenes/AlphaPeel#43). ({pr}10, {user}AudreyAAMartin)
Maintenance:
-
Added option to call help
-
We have revised and polished the documentation.
Breaking changes:
- There has been an unfortunate split in the codebase between AlphaImpute2 and AlphaPlantImpute2
in
writePhase()as reported at AlphaImpute2 repo (AlphaGenes/AlphaImpute2#16). We decided to revert back to the initial form used before the code split, which will break AlphaPlantImpute2 for now, but that will be fixed later. ({issue}8, {issue}1, {pr}4, {user}XingerTang`)