dot_plot: dot_plot

In cinaR: A Computational Pipeline for Bulk 'ATAC-Seq' Profiles

dot_plot

Description

Given the results from 'cinaR' it produces dot plots for enrichment analyses.

Usage

dot_plot(results, fdr.cutoff = 0.1, filter.pathways = FALSE)

Arguments

results	cinaR result object
fdr.cutoff	Pathways with smaller fdr values than the cut-off will be shown as dots.
filter.pathways	logical, it will filter the pathways from dot plot with fdr values less than 'fdr.cutoff'.

Value

ggplot object

Examples

library(cinaR)
data(atac_seq_consensus_bm) # calls 'bed'

# a vector for comparing the examples
contrasts <- sapply(strsplit(colnames(bed), split = "-", fixed = TRUE),
                    function(x){x[1]})[4:25]

results <- cinaR(bed, contrasts, reference.genome = "mm10")

dot_plot(results)

cinaR documentation built on May 18, 2022, 5:12 p.m.