getGEOMetadata: 'getGEOMetadata'
In Onassis: OnASSIs Ontology Annotation and Semantic SImilarity software

Description Usage Arguments Value Examples

This method retrierves the descriptive fields of the samples in GEO for a given experiment_type, organism or platform.

1 2	getGEOMetadata(geo_con, experiment_type = NA, organism = NA, gpl = NA)

`geo_con`	connection to the SQLite GEOmetadb databse
`experiment_type`	The type of experiment. Allowed values can be obtained through the function `experiment_types`
`organism`	Optional type of organism. Allowed species can be obtained using the function `organism_types`. If no organism is passed as parameter the query will retrieve all the organisms
`gpl`	Optional platform identifier in case a platform based query has to be executed

A data frame with the queried samples' metadata

if(file.exists('GEOmetadb.sqlite')){
 geo_con <- connectToGEODB('GEOmetadb.sqlite')
methilation <- getGEOMetadata(geo_con,
'Methylation profiling by high throughput sequencing', 'Homo sapiens')
expression <- getGEOMetadata(geo_con,
 'Expression profiling by array', 'Homo sapiens', 'GPL570')
}else{
 print('You need to download GEOmetadb.sqlite to run this example')
}