cr_genic_stat: Plot general statistics for the annotations to genes

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

Description

Plot general statistics for the annotations to genes

Usage

cr_genic_stat(cr_reduced, txdb)

Arguments

cr_reduced	significant correlated regions which have been reduced by cr_reduce
txdb	the transcriptome annotation which is same as the one used in correlated_regions

Details

There are five plots:

• mean methylation difference for negative/positive CRs in promoters/gene body/intergenic regions

• length of negative/positive CRs in promoters/gene body/intergenic regions

• number of genes for which promoters/gene body/intergenic regions are affected by negative/positive CRs

• sum of length of negative/positive CRs in promoters/gene body/intergenic regions

• Number of CpG per 1kb window for negative/positive CRs in promoters/gene body/intergenic regions

Here the promoter is defined as (-1000, 2000) of TSS.

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.