post_eupath_ortholog_table: Use the post interface to get ortholog data.

In khughitt/EuPathDB: Provides access to pathogen annotation resources available on EuPathDB databases

Use the post interface to get ortholog data.

Description

The folks at the EuPathDB kindly implemented the table 'OrthologsLite' which makes it possible for me to use this function without trouble.

Usage

post_eupath_ortholog_table(
  entry,
  working_species,
  ortholog_table = NULL,
  gene_ids = NULL,
  overwrite = FALSE,
  verbose = TRUE
)

Arguments

entry	The full annotation entry.
ortholog_table	This should no longer be needed, it is only OrthologsLite now.
gene_ids	When provided, ask only for the orthologs for these genes.
overwrite	Overwrite incomplete savefiles?
build_dir	Location to which to save an intermediate savefile.

Value

A big honking table.

khughitt/EuPathDB documentation built on Nov. 4, 2023, 4:19 a.m.