mapRangesToIds: Map Genomic Ranges to IDs

Description Usage Arguments Value Methods (by class) Examples

Description

Map Genomic Ranges to IDs

Usage

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mapRangesToIds(x, ...)

## S4 method for signature 'TxDb'
mapRangesToIds(x, ranges, type = c("cds", "exon", "tx",
  "gene"), columns = NULL, ...)

Arguments

x

Database to use for mapping

ranges

range object used to subset

type

of feature to return

columns

additional metadata columns to include in the output.

...

Additional arguments passed to findOverlaps

Value

DataFrame of mcols from the database.

Methods (by class)

Examples

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fl <- system.file(package = "GenomicFeatures", "extdata", "sample_ranges.rds")
txdb <- makeTxDbFromGRanges(readRDS(fl))

keys <- list(tx_name = c("ENST00000371582", "ENST00000371588",
    "ENST00000494752", "ENST00000614008", "ENST00000496771"))
res <- mapIdsToRanges(txdb, keys = keys, type = "tx")
mapRangesToIds(txdb, res, "tx")

Bioconductor/GenomicFeatures documentation built on May 25, 2021, 5:47 a.m.