profileClusters {chroGPS}R Documentation

Assess epigenetic profiles for genes present in each cluster as obtained by the clusGPS function.

Description

Assess epigenetic profiles for genes present in each cluster as obtained by the clusGPS function.

Usage

profileClusters(x, clus, clusName = NULL, normalize = FALSE, mc.cores = 1, ...)

Arguments

x

Matrix or data.frame with epigenetic profiles used to generate chroGPS-genes map. See distGPS.

clus

A valid clusGPS object from the chroGPS-genes map generated from x.

clusName

If desired, the name of a clustering solution within the clusGPS object. See clusNames.

normalize

Normalize epigenetic profile information with respect to whole genome (to assess enrichments/depletions).

mc.cores

Cores to use in call to parallel::mclapply.

...

Additional arguments.

Value

Data frame with epigenetic enrichment profiles for all clusters (rows) and epigenetic factors (columns), to be used for downstream assessments or visualization (heatmaps).

Author(s)

Oscar Reina.

See Also

distGPS, clusGPS.

Examples

## Not run

[Package chroGPS version 2.0.1 Index]