cr_reduce: Merge correlated regions

In jokergoo/epik: Integrative Analysis and Visualization of Epigenomic Sequencing Data

Description

Merge correlated regions

Usage

cr_reduce(cr, txdb, expr = NULL, gap = bp(1), mc.cores = 1)

Arguments

cr	correlated regions from correlated_regions. In most cases, it is correlated regions with significant correlations.
txdb	the transcriptome annotation which is same as the one used in correlated_regions
expr	the expression matrix which is same as the one used in correlated_regions. If it is set the correlation will be re-calculated for the merged regions.
gap	gap for the merging, pass to reduce2
mc.cores	cores for parallel computing. It is paralleled by gene.

Details

As there may be overlaps between two neighbouring correlated regions, it is possible to merge them into larger regions. The mering is gene-wise, and all statistics (e.g. mean methylation, correlation) will be re-calculated.

Value

A GRanges object

Author(s)

Zuguang Gu <[e-mail]>

Examples

# There is no example
NULL

jokergoo/epik documentation built on Sept. 28, 2019, 9:20 a.m.