detTSR {TSRchitect}R Documentation

detTSR

Description

An internal function, which is invoked using the user-level function determineTSR that identifies TSRs from the selected tssSet (Internal function)

Usage

detTSR(experimentName, tsrSetType, tssSet = 1, tagCountThreshold,
  clustDist)


  ## S4 method for signature 'tssObject,character,numeric,numeric,numeric'
detTSR(experimentName,
  tsrSetType, tssSet = 1, tagCountThreshold = 1, clustDist)

Arguments

experimentName

- a S4 object of class tssObject containing information in slot tssTagData

tsrSetType

- specifies the set to be clustered. Options are "replicates" or "merged"

tssSet

- number of the dataset to be analyzed

tagCountThreshold

- number of TSSs required at a given position

clustDist

- maximum distance of TSSs between two TSRs (in base pairs)

Value

via the user-level function determineTSR, creates a list of GenomicRanges objects containing TSR positions in slot 'tsrData' on the tssObject object


[Package TSRchitect version 1.8.9 Index]