genomicFrequencies: Frequencies of combinatorial states

In chromstaR: Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data

Description

Get the genomewide frequency of each combinatorial state.

Usage

genomicFrequencies(multi.hmm, combinations = NULL, per.mark = FALSE)

Arguments

multi.hmm	A multiHMM or combinedMultiHMM object or a file that contains such an object.
combinations	A vector with combinations for which the frequency will be calculated. If NULL all combinations will be considered.
per.mark	Set to TRUE if you want frequencies per mark instead of per combination.

Value

A table with frequencies of each combinatorial state.

Author(s)

Aaron Taudt

Examples

## Get an example multiHMM
file <- system.file("data","multivariate_mode-combinatorial_condition-SHR.RData",
                    package="chromstaR")
model <- get(load(file))
genomicFrequencies(model)

chromstaR documentation built on Nov. 8, 2020, 8:29 p.m.