Currently, in cstmm, single-copy orthologs are obtained using OrthoFinder's Orthogroups_SingleCopyOrthologues.txt. But this doesn't allow users to add more species to OrthoFinder for better accuracy and to extract genes that are single-copy in amalgkit input species, but not necessarily among all species. Orthogroups.GeneCount.tsv will allow such procedure.
kfuku52
commented
3 years ago
Currently, in
cstmm, single-copy orthologs are obtained using OrthoFinder'sOrthogroups_SingleCopyOrthologues.txt. But this doesn't allow users to add more species to OrthoFinder for better accuracy and to extract genes that are single-copy inamalgkitinput species, but not necessarily among all species.Orthogroups.GeneCount.tsvwill allow such procedure.