runDBSCAN: Run clustering iterations with selected parameters using...

In PolinaPavlovich/CONCLUS: ScRNA-seq workflow CONCLUS - from CONsensus CLUSters to a meaningful CONCLUSion.

Description

This function returns a matrix of clustering iterations of DBSCAN.

Usage

runDBSCAN(tSNEResults, sceObject, dataDirectory, experimentName,
  cores = 14, epsilon = c(1.3, 1.4, 1.5), minPoints = c(3, 4))

Arguments

tSNEResults	results of conclus::generateTSNECoordinates() function.
sceObject	a SingleCellExperiment object with your experiment.
dataDirectory	output directory for CONCLUS (supposed to be the same for one experiment during the workflow).
experimentName	name of the experiment which will appear in filenames (supposed to be the same for one experiment during the workflow).
cores	maximum number of jobs that CONCLUS can run in parallel.
epsilon	a fpc::dbscan() parameter.
minPoints	a fpc::dbscan() parameter.

Value

A matrix of DBSCAN results.

PolinaPavlovich/CONCLUS documentation built on May 10, 2019, 2:42 p.m.