whichCluster: Find which cluster a peak is in

In GabrielHoffman/decorate: Differential Epigenetic Coregulation Test

Find which cluster a peak is in

Description

Find which cluster a peak is in

Usage

whichCluster(treeListClusters, feature_id, id = NULL)

Arguments

treeListClusters	from createClusters()
feature_id	name of query feature, can also be array
id	clustering parameter identifier. After filtering by feature_id, filter by id

Value

data.frame of chromosome and cluster

Examples

library(GenomicRanges)

data('decorateData')

# Evaluate hierarchical clustering
treeList = runOrderedClusteringGenome( simData, simLocation ) 

# Choose cutoffs and return clusters
treeListClusters = createClusters( treeList, method='meanClusterSize', meanClusterSize = c(50, 100) )

# Find chromsome and cluster of peak_20
whichCluster( treeListClusters, 'peak_20')

# Find chromsome and cluster of peak_20 with clustering parameter 50 
#  corresponding to meanClusterSize 
whichCluster( treeListClusters, 'peak_20', "50")

# Search for multiple clusters
whichCluster( treeListClusters, c('peak_20', 'peak_21'), "50")

GabrielHoffman/decorate documentation built on May 23, 2023, 1:29 a.m.