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GEO accession type

Source: R/geo-.R
geo_gtype.Rd

Determine the type of a GEO accession ID (e.g. DataSet, Series, Sample, Platform). This function inspects the accession prefix and returns its corresponding GEO type, optionally in an abbreviated form.

Usage

geo_gtype(accession, abbre = FALSE)

Arguments

accession

A character of GEO accession IDs. Examples:

  • DataSets (GDS): "GDS505", "GDS606", "GDS1234", "GDS9999", etc.

  • Series (GSE): "GSE2", "GSE22", "GSE100", "GSE2000", etc.

  • Platforms (GPL): "GPL96", "GPL570", "GPL10558", etc.

  • Samples (GSM): "GSM12345", "GSM67890", "GSM112233", etc.

abbre

A logical scalar indicating whether to abbreviate the GEO type in the return value. If FALSE (default), the full type name is returned; if TRUE, a short abbreviation is used.

Value

A character of GEO accession type.

Examples

geo_gtype("GSE10")
#> [1] "Series"
geo_gtype("gpl98")
#> [1] "Platforms"
geo_gtype("GSM1")
#> [1] "Samples"
geo_gtype("GDS10")
#> [1] "Datasets"

# use abbreviation
geo_gtype("GSE10", TRUE)
#> [1] "GSE"
geo_gtype("gpl98", TRUE)
#> [1] "GPL"
geo_gtype("GSM1", TRUE)
#> [1] "GSM"
geo_gtype("GDS10", TRUE)
#> [1] "GDS"