filter_annotations: Filter annotations

In CshlSiepelLab/nascentRNASim:

Description

Gets a filtered candidate list of transcripts to use for simulation

Usage

filter_annotations(
  tx,
  min_distance = 20000,
  min_length = 3000,
  keep_chromosomes = NULL,
  keep_tx_biotype = NULL
)

Arguments

tx	A GRanges-class or TxDb-class
min_distance	minimum distance between candidate transcript and closest transcript (strand agnostic).
min_length	minimum length of candidate transcript
keep_chromosomes	a character vector of chromosomes to select candidate transcripts from. Defaults to all chromsomes in tx object
keep_tx_biotype	a character vector of transcript types to select candidate transcripts from. Defaults to all types.

Value

A list of vectors with each one corresponding to one set of bins and each element of a vector corresponding to a bin

CshlSiepelLab/nascentRNASim documentation built on Dec. 17, 2021, 3:08 p.m.