map_orthologs_babelgene {orthogene} | R Documentation

## Map orthologs: babelgene

### Description

Map orthologs from one species to another using orthologs.

### Usage

    map_orthologs_babelgene(
      genes,
      input_species,
      output_species = "human",
      min_support = 1,
      top = FALSE,
      verbose = TRUE,
      ...
    )

### Arguments

`genes` | Gene list.
`input_species` | Name of the input species (e.g., "mouse","fly"). Use map_species to return a full list of available species.
`output_species` | Name of the output species (e.g. "human","chicken"). Use map_species to return a full list of available species.
`min_support` | Minimum number of supporting source databases.
`top` | For each gene, output only the match with the highest support level if there are multiple hits.
`verbose` | Print messages.
`...` | Additional arguments to be passed to gorth or homologene. NOTE: To return only the most "popular" interspecies ortholog mappings, supply `mthreshold=1` here AND set `method="gprofiler"` above. This procedure tends to yield a greater number of returned genes but at the cost of many of them not being true biological 1:1 orthologs. For more details, please see here.

### Value

Ortholog map `data.frame`

### Source

babelgene tutorial

[Package orthogene version 1.0.2 Index]