R: 'filterconcepts'

filterconcepts {Onassis}

R Documentation

`filterconcepts`

Description

This method filters unwanted concepts from the entities of an Onassis-class object

Usage

filterconcepts(onassis, concepts_to_filter)

## S4 method for signature 'Onassis'
filterconcepts(onassis, concepts_to_filter = c())

Arguments

`onassis`	An object of class `Onassis-class` with already annotated entities
`concepts_to_filter`	A vector with unwanted concepts

Value

the instance of Onassis-class with filtered entities

Examples

geo_chip <- readRDS(system.file('extdata', 'vignette_data',
'GEO_human_chip.rds', package='Onassis'))
geo_chip <- geo_chip[sample(nrow(geo_chip), 15) ,]
obo <- system.file('extdata', 'sample.cs.obo', package='OnassisJavaLibs')
onassis_results <- annotate(geo_chip, 'OBO', dictionary=obo)
filtered_onassis <- filterconcepts(onassis_results, c('cell'))

[Package Onassis version 1.9.3 Index]