detTSR-methods: detTSR

Description Usage Arguments Value

Description

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

Usage

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

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

Arguments

experimentName

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

tssSetType

- 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


BrendelGroup/TSRchitect documentation built on March 3, 2021, 1:45 a.m.