conservedOrthologs: Identifies those pairs of orthologous genes where one member...

In asishallab/GeneFamilies: Analyses different properties of gene families

Identifies those pairs of orthologous genes where one member appears in all pairwise species comparisons.

Description

Identifies those pairs of orthologous genes where one member appears in all pairwise species comparisons.

Usage

conservedOrthologs(pairwise.orths, intersect.col = "V1",
  ortholog.col = "V2", anchor.species = "chi")

Arguments

pairwise.orths	a list of two column data frames holding orthologous gene pairs identified in pairwise species comparisons. The names of this list reflect the species the anchoring species was compared to iteratively
intersect.col	the name or index of the column of each of the data frames in 'pairwise.orths' to use as a source of gene identifiers
ortholog.col	the name or index of the column to extract ortholog genes from when they match anchor species orthologs conserved over all species comparisons
anchor.species	the name of the species which was used in all pairwise comparisons.

Value

a two column data frame of orthologous gene groups where an ortholog was found in each species.

asishallab/GeneFamilies documentation built on May 22, 2023, 11:30 a.m.