createRandomNodes: Create a list of random nodes

In jianhong/GenomicInteractionNodes: A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data

Create a list of random nodes

Description

Generate a list of random nodes used for example or test.

Usage

createRandomNodes(
  txdb,
  seq = "chr22",
  size = 500,
  upstream = 500,
  downstream = 500,
  maxDist = 1e+06,
  wid = 5000
)

Arguments

txdb	An TxDb object.
seq	seqlevels to be kept.
size	the length of regions involved in nodes
upstream, downstream	upstream or downstream for promoters
maxDist	maximal distance from promoters
wid	regions width.

Value

An GRanges object with comp_id metadata.

Examples

library(TxDb.Hsapiens.UCSC.hg19.knownGene)
set.seed(123)
node_regions <- createRandomNodes(TxDb.Hsapiens.UCSC.hg19.knownGene)

jianhong/GenomicInteractionNodes documentation built on Nov. 5, 2024, 4:20 p.m.