geoConvert {GEOmetadb} | R Documentation |
A common task is to find all the GEO entities of one type associated with another GEO entity (eg., find all GEO samples associated with GEO platform 'GPL96'). This function provides a very fast mapping between entity types to facilitate queries of this type.
geoConvert(in_list, out_type = c("gse", "gpl", "gsm", "gds", "smatrix"), sqlite_db_name = "GEOmetadb.sqlite")
in_list |
Character vector of GEO entities to convert from. |
out_type |
Character vector of GEO entity types to which to convert. |
sqlite_db_name |
The filename of the GEOmetadb sqlite database file |
A list of data.frames.
Jack Zhu <zhujack@mail.nih.gov>
http://meltzerlab.nci.nih.gov/apps/geo, http://gbnci.abcc.ncifcrf.gov/geo/
if(file.exists("GEOmetadb.sqlite")) { geoConvert('GPL96',out_type='GSM') } else { print("Run getSQLiteFile() to get a copy of the GEOmetadb SQLite file and then rerun the example") }