Samples and platforms of GEO series

The GEOmetadb join of gse_gsm, gsm and gpl as one call.

Usage

geo_samples(con, gse)

Arguments

con

A connection from omicidx_connect(), or an omicidx_db().

gse

character. GEO series accessions.

Value

A tibble with one row per series and sample: gse, gsm, sample title, gpl, platform_title, organism, source, molecule, sample type, library_source, biosample and sra_experiment.

Examples

con <- omicidx_connect()
geo_samples(con, "GSE164073")
#> # A tibble: 18 × 12
#>    gse       gsm        title  gpl   platform_title organism_ch1 source_name_ch1
#>    <chr>     <chr>      <chr>  <chr> <chr>          <chr>        <chr>          
#>  1 GSE164073 GSM4996084 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  2 GSE164073 GSM4996085 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  3 GSE164073 GSM4996086 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  4 GSE164073 GSM4996087 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  5 GSE164073 GSM4996088 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  6 GSE164073 GSM4996089 Corne… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  7 GSE164073 GSM4996090 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  8 GSE164073 GSM4996091 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#>  9 GSE164073 GSM4996092 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 10 GSE164073 GSM4996093 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 11 GSE164073 GSM4996094 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 12 GSE164073 GSM4996095 Limbu… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 13 GSE164073 GSM4996096 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 14 GSE164073 GSM4996097 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 15 GSE164073 GSM4996098 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 16 GSE164073 GSM4996099 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 17 GSE164073 GSM4996100 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> 18 GSE164073 GSM4996101 Scler… GPL1… Illumina Next… Homo sapiens cadaver donor …
#> # ℹ 5 more variables: molecule_ch1 <chr>, type <chr>, library_source <chr>,
#> #   biosample <chr>, sra_experiment <chr>
DBI::dbDisconnect(con)