OmaDB-deprecated: Deprecated functions in package 'OmaDB'.

In klarakaleb/roma: R wrapper for the OMA REST API

Deprecated functions in package OmaDB.

Description

These functions are provided for compatibility with older versions of OmaDB only, and will be defunct at the next release.

Usage

getXref(pattern)

getAnnotation(query)

getGenomeAlignment(genome1, genome2, chr1 = NULL, chr2 = NULL,
  rel_type = NULL)

getData(type, id, attribute = NULL)

Details

The following functions are deprecated and will be made defunct; use the replacement indicated below:

getXref

For getXref, use searchProtein.

getAnnotation

For getAnnotation, use annotateSequence.

getGenomeAlignment

For getGenomeAlignment, use getGenomePairs.

getData

For getData, use getProtein, getGenome, getOMAGroup.

klarakaleb/roma documentation built on April 21, 2024, 8:39 a.m.