getPermSpaceByTxID: Get permutation space by specifying transcript ids

In yue-wang-biomath/RgnTX: Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and ambiguity

Get permutation space by specifying transcript ids

Description

This function returns 5'UTR/CDS/3'UTR/mRNA/full part of transcriptome regions grouped by corresponding transcript ids.

Usage

getPermSpaceByTxID(trans_ids = "all", txdb, type = "mature")

Arguments

trans_ids	A character object. The transcript ids. Default is "all". If it takes the default value "all", the space that users get will be the whole transcriptome.
txdb	A TxDb object.
type	A character object. Default is "mature". It accepts options "mature", "full", "fiveUTR", "CDS" or "threeUTR", with which one can get corresponding types of transcriptome regions.

Value

A GRangesList object.

See Also

getPermSpaceByType, getPermSpaceByFeatures

yue-wang-biomath/RgnTX documentation built on Aug. 24, 2023, 1:12 p.m.