reproduce_ranges {recount} | R Documentation |
This function reproduces the gene or exon level information used for creating
the RangedSummarizedExperiment-class
objects provided by recount. The annotation is based on
Gencode v25 with the gene-level
information extracted with genes()
(see
transcripts with default arguments.
reproduce_ranges(level = "gene", db = "Gencode.v25")
level |
Either |
db |
Either |
For Gencode.v25, we use the comprehensive gene annotation (regions:
CHR
) from https://www.gencodegenes.org/releases/25.html
(GRCh38.p7).
Either a GRanges-class object like recount_genes or a GRangesList-class object like recount_exons.
Leonardo Collado-Torres
recount_genes, recount_exons, https://github.com/nellore, https://jhubiostatistics.shinyapps.io/recount/
## Not run: ## Reproduce gene level information genes <- reproduce_ranges() ## Compare against recount_genes length(genes) length(recount_genes) ## End(Not run)