computeBoundaryScores: Compute boundary scores

In aryeelab/sparseHiC: Efficient compression and analysis of Hi-C Data

Description

computeBoundaryScores returns a data.frame object with boundary scores.

Usage

computeBoundaryScores(hic, sample, chrs, res, num_bins)

## S4 method for signature 'ANY'
computeBoundaryScores(hic, sample, chrs = paste0("chr",
  c(1:22)), res = "20000", num_bins = 5)

Arguments

hic	A sparseHiC Object
sample	The name of the sample (e.g. GM12878 or BT142-rep1)
chrs	= paste0("chr", c(1:22)) Specify which chromosomes to compute boundary scores for
res	= "20000"
num_bins	= "human" or "mouse" likely supported

Value

A data.frame of boundary scores

Examples

# Need to make the example better
samp <- "IMR90"
# hesc <- getSampleFromBucket(samp, "dnalandscaper", c("chr1", "chr4"))

aryeelab/sparseHiC documentation built on May 12, 2019, 3:43 a.m.