ArchR (version 1.0.1)

getMarkers: Get Marker Features from a marker summarized experiment

Description

This function will identify Markers and return a List of Features or a GRangesList for each group of significant marker features.

Usage

getMarkers(
  seMarker = NULL,
  cutOff = "FDR <= 0.1="" &="" log2fc="">= 0.5",
  n = NULL,
  returnGR = FALSE
)

Arguments

seMarker

A SummarizedExperiment object returned by getMarkerFeatures().

cutOff

A valid-syntax logical statement that defines which marker features from seMarker. cutoff can contain any of the assayNames from seMarker.

n

An integer that indicates the maximum number of features to return per group.

returnGR

A boolean indicating whether to return as a GRanges object. Only valid when seMarker is computed for a PeakMatrix.