getTopFeatures-SummarizedExperiment-method: Get the Top Ranked Features in a 'SummarizedExperiment'...

In bhklab/PDATK: Pancreatic Ductal Adenocarcinoma Tool-Kit

Description

Get the Top Ranked Features in a SummarizedExperiment object

Usage

## S4 method for signature 'SummarizedExperiment'
getTopFeatures(object, numFeats, ..., rankCol = "feature_rank")

Arguments

object	A SummarizedExperiment to extract top features from
numFeats	An integer number of top ranked features to extract.
...	Fall through arguments to rankFeatures, which is used to calculate the ranks if rankCol is not present the object rowData.
rankCol	The name of the column containing the integer feature ranks. Defaults to feature_rank, as calculated with rankFeatures, but users can alternatively specify their own custom rank column if desired.

Value

A character vector of top ranked features, with the features in order of rank ascending.

Examples

data(sampleICGCmicro)
getTopFeatures(sampleICGCmicro, numFeats=20)

bhklab/PDATK documentation built on Dec. 27, 2021, 7:46 a.m.