check_species: Check species

In NathanSkene/EWCE: Expression Weighted Celltype Enrichment

Check species

Description

If species arguments are NULL, set default species.

Usage

check_species(
  genelistSpecies = NULL,
  sctSpecies = NULL,
  sctSpecies_origin = NULL,
  sctSpecies_origin_default = "mouse",
  verbose = TRUE
)

Arguments

genelistSpecies	Species that hits genes came from (no longer limited to just "mouse" and "human"). See list_species for all available species.
sctSpecies	Species that sct_data is currently formatted as (no longer limited to just "mouse" and "human"). See list_species for all available species.
sctSpecies_origin	Species that the sct_data originally came from, regardless of its current gene format (e.g. it was previously converted from mouse to human gene orthologs). This is used for computing an appropriate backgrund.
sctSpecies_origin_default	Default value for sctSpecies_origin.
verbose	Print messages.

Value

List of corrected species names.

NathanSkene/EWCE documentation built on April 10, 2024, 1:02 a.m.