simulate_annotations: Simulate annotations

In CshlSiepelLab/nascentRNASim:

Description

Simulates per loci annotation

Usage

simulate_annotations(
  ta,
  n,
  template,
  genome = NULL,
  tx_min_length = 3000,
  method = c("neighbor", "parametric"),
  min_loci_tx = 1,
  max_loci_tx = 40,
  seed = NULL
)

Arguments

ta	a transcript_archetypes-class object
n	the number of loci to simulate annotations for
template	can be a GRanges-class that provides template annotations as a basis for simulating loci with realistic properties.
genome	a genome name that will be used to retrieve chromosome lengths if they are not already specified
tx_min_length	do not simulate transcripts shorter than this length
method	method to use for simulating intra-loci transcript properties. The two methods are neighbors and empirical. More in information in details.
min_loci_tx	minimum number of transcripts per loci
max_loci_tx	maximum number of transcripts per loci
seed	random seed to use for simulation

Details

Stuff about methods

Value

A GRanges-class of transcript annotations

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