topMarkers: Top Markers

In WeiSong-bio/roryk-bcbioSinglecell: Single-Cell RNA-Seq Utilities

Description

Top Markers

Usage

topMarkers(object, ...)

## S4 method for signature 'grouped_df'
topMarkers(object, n = 10L, direction = c("positive",
  "negative", "both"), coding = FALSE)

Arguments

object	Object.
...	Additional arguments.
n	Number of genes per cluster.
direction	Whether to include "positive", "negative", or "both" directions of association per cluster.
coding	Only include protein coding genes.

Value

grouped_df.

Author(s)

Michael Steinbaugh

See Also

• dplyr::slice().

• dplyr::top_n().

Other Clustering Functions: cellTypesPerCluster, knownMarkersDetected, plotCellTypesPerCluster, plotFeatureTSNE, plotKnownMarkersDetected, plotPCElbow, plotTSNE, sanitizeMarkers

Examples

# grouped_df ====
# Currently only works on `Seurat::FindAllMarkers()` return sanitized with
# our `sanitizeMarkers()` function
x <- topMarkers(
    object = all_markers_small,
    n = 2L,
    direction = "positive"
)
head(x)

WeiSong-bio/roryk-bcbioSinglecell documentation built on July 6, 2019, 12:03 a.m.