Get DESCRIPTION from gene SYMBOL for Human and Mouse

describe_transcript

describe_transcript(.data)

.describe_transcript_SE(.data)

# S4 method for class 'SummarizedExperiment'
describe_transcript(.data)

# S4 method for class 'RangedSummarizedExperiment'
describe_transcript(.data)

Arguments

.data: A tt or tbl object.

Value

A tbl

A `SummarizedExperiment` object

A consistent object (to the input) including additional columns for transcript symbol

References

Mangiola, S., Molania, R., Dong, R., Doyle, M. A., & Papenfuss, A. T. (2021). tidybulk: an R tidy framework for modular transcriptomic data analysis. Genome Biology, 22(1), 42. doi:10.1186/s13059-020-02233-7

Carlson, M. (2019). org.Hs.eg.db: Genome wide annotation for Human. R package version 3.8.2.

Carlson, M. (2019). org.Mm.eg.db: Genome wide annotation for Mouse. R package version 3.8.2.

Examples

## Load airway dataset for examples

  data('airway', package = 'airway')
  # Ensure a 'condition' column exists for examples expecting it

    SummarizedExperiment::colData(airway)$condition <- SummarizedExperiment::colData(airway)$dex



describe_transcript(airway)
#> 
#> class: RangedSummarizedExperiment 
#> dim: 63677 8 
#> metadata(1): ''
#> assays(1): counts
#> rownames(63677): ENSG00000000003 ENSG00000000005 ... ENSG00000273492
#>   ENSG00000273493
#> rowData names(11): gene_id gene_name ... symbol description
#> colnames(8): SRR1039508 SRR1039509 ... SRR1039520 SRR1039521
#> colData names(10): SampleName cell ... BioSample condition