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Human pancreatic islet bulk RNA-seq example dataset

Source: R/data.R
islet_bulk.Rd

A full human pancreatic islet bulk RNA-seq SummarizedExperiment derived from a brefeldin A perturbation study. The object keeps all samples from the published islet arm and stores a symbol-level count matrix that can be used directly in bulk DE and deconvolution examples together with the bundled panc8_sub reference.

Format

A SummarizedExperiment object with 19876 genes and 8 bulk RNA-seq samples.

Source

Derived from GSE152615. The bundled object is built from the supplementary matrix GSE152615_Rawcounts_filtered.txt.gz. The published non-integer count values are rounded to the nearest integer for count-based example workflows.

Examples

if (interactive()) {
  data(islet_bulk)
  SummarizedExperiment::assayNames(islet_bulk)
  head(rownames(islet_bulk))
  table(SummarizedExperiment::colData(islet_bulk)$condition)
}