obtain a summarized experiment with GEUVADIS (Coriell) RNA-seq quantifications

getGeuvRNA()

Examples

requireNamespace("SummarizedExperiment")
gg = getGeuvRNA()
gg
#> class: RangedSummarizedExperiment 
#> dim: 63856 464 
#> metadata(9): time_created recount3_version ... recount3_url unique
#> assays(1): raw_counts
#> rownames(63856): ENSG00000278704.1 ENSG00000277400.1 ...
#>   ENSG00000182484.15_PAR_Y ENSG00000227159.8_PAR_Y
#> rowData names(10): source type ... havana_gene tag
#> colnames(464): NA12399 HG00253 ... HG00312 NA20525
#> colData names(175): rail_id external_id ...
#>   recount_pred.curated.cell_line BigWigURL
SummarizedExperiment::assay(gg[1:4,1:5])
#>                   NA12399 HG00253 NA18909 NA20586 NA12775
#> ENSG00000278704.1       0       0       0       0       0
#> ENSG00000277400.1       0       0       0       0       0
#> ENSG00000274847.1       0       0       0       0       0
#> ENSG00000277428.1       0       0       0       0       0