fac2palette

Encodes logic of how to handle named-vector and functional palettes. Used primarily within embeddingGroupPlot()

Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP <doi:10.21105/joss.00861>, collapsing vertices of each cluster in the graph, and propagating graph labels.

Evan Biederstedt

sccore

Core Utilities for Single-Cell RNA-Seq

Viktor Petukhov

Rasmus Rydbirk

Peter Kharchenko

fac2palette function

<dl><dt>groups</dt>
<dd>vector of cluster labels, names contain cell names</dd>
<dt>palette</dt>
<dd>vector or list or function (default=NULL). Accepts number of colors and return list of colors (i.e. see 'colorRampPalette')</dd>
<dt>unclassified.cell.color</dt>
<dd>Color for unclassified cells (default='gray50')</dd></dl>

Arguments

Encodes logic of how to handle named-vector and functional palettes. Used primarily within embeddingGroupPlot() — fac2palette

<dl>

<dt>groups</dt>
<dd>vector of cluster labels, names contain cell names</dd>


<dt>palette</dt>
<dd>vector or list or function (default=NULL). Accepts number of colors and return list of colors (i.e. see 'colorRampPalette')</dd>


<dt>unclassified.cell.color</dt>
<dd>Color for unclassified cells (default='gray50')</dd>

</dl>

fac2palette: Encodes logic of how to handle named-vector and functional palettes. Used primarily within embeddingGroupPlot()

Description

Usage

Value

Arguments