Display a VISTA object — VISTA-show • VISTA

Prints the SummarizedExperiment header followed by a short summary of the analysis state – grouping, comparisons, active differential-expression source, thresholds and schema version – none of which was visible before.

Usage

# S4 method for class 'VISTA'
show(object)

Arguments

object: A VISTA object.

Value

object, invisibly. Called for its output.

Examples

v <- example_vista()
v
#> class: VISTA 
#> dim: 123 6 
#> metadata(12): de_results de_summary ... design comparison
#> assays(2): norm_counts counts
#> rownames(123): ENSG00000000003 ENSG00000000419 ... ENSG00000006607
#>   ENSG00000006625
#> rowData names(1): baseMean
#> colnames(6): SRR1039508 SRR1039512 ... SRR1039513 SRR1039517
#> colData names(14): SampleName cell ... sizeFactor sample_names
#> -------- VISTA --------
#> group column: cond_long (control, treatment1)
#> comparisons: treatment1_VS_control
#> DE source: deseq2
#> cutoffs: |log2FC| >= 1, padj <= 0.05
#> raw counts: available via counts()
#> schema: 1.1.0