Get and set the ontology Source Reference (oSR) data.frame in an object of ISA.
Arguments
- x
An object of class ISA.
- value
A data.frame containing the ontology Source Reference information. data.frame in which at least the following columns are present: 'Term Source Name', 'Term Source File', 'Term Source Version', 'Term Source Description'.
Value
A data.frame containing the ontology Source Reference information.
The updated object of class ISA.
Examples
## Read example Atwell data set.
isaObject1 <- readISATab(path = file.path(system.file("extdata/Atwell",
package = "isatabr")))
## Extract ontology Source Reference data.frame.
oSR(isaObject1)
#> Term Source Name Term Source File
#> 1 OBI http://data.bioontology.org/ontologies/OBI
#> 2 EFO http://data.bioontology.org/ontologies/EFO
#> 3 UO http://purl.obolibrary.org/obo/UO
#> 4 NCBITaxon http://data.bioontology.org/ontologies/NCBITAXON
#> 5 PO http://data.bioontology.org/ontologies/PO
#> 6 GMI http://gwas.gmi.oeaw.ac.at/
#> Term Source Version
#> 1 23
#> 2 118
#> 3 <NA>
#> 4 6
#> 5 10
#> 6 <NA>
#> Term Source Description
#> 1 Ontology for Biomedical Investigations
#> 2 Experimental Factor Ontology
#> 3 Unit Ontology
#> 4 National Center for Biotechnology Information (NCBI) Organismal Classification
#> 5 Plant Ontology
#> 6 Cataloque of Arabidopsis accessions at GMI