general_chipseq_association: General association between histone modifications

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

Description

General association between histone modifications

Usage

general_chipseq_association(gr_list, q = 0.9)

Arguments

gr_list	a list of GRanges objects that each one corresponds to one histone modification Each GRanges object must have a diff column which is the signal difference in two groups. The object is usually from hilbert_curve_chipseq_difference.
q	quantile of difference where Venn diagrams are added

Details

For every pair of histone marks, the Jaccard coefficient for the regions which show higher difference than quantile seq(0.1, 0.9, by = 0.1) is calculated and visualized. There are three plots:

For each pair of histone marks,

• one mark having higher signals in group 1 and the other having higher signals in group 2, or vise versa

• both marks having higher signals in group 1

• both marks having higher signals in group 2

Value

no value is returned

Author(s)

Zuguang Gu <[e-mail]>

Examples

# There is no example
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jokergoo/epik documentation built on Sept. 28, 2019, 9:20 a.m.