run_orthofinder: Accessory function to run OrthoFinder

In jtlovell/GENESPACE: Synteny- and orthology-constrained comparative genomics

Accessory function to run OrthoFinder

Description

run_orthofinder Call OrthoFinder from R

Usage

run_orthofinder(gsParam, verbose = TRUE)

Arguments

gsParam	a genespace param list, made by init_genespace.
verbose	Logical, should updates be printed to the console?

Details

Simple directory parser to find and check the paths to all annotation and assembly files.

Value

A list containing paths to the raw files. If a file is not found, path is returned as null and a warning is printed.

Examples

## Not run: 
# coming soon

## End(Not run)

jtlovell/GENESPACE documentation built on Jan. 25, 2025, 6:39 a.m.