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Bioconductor - scDotPlot (development version)

scDotPlot

This is the development version of scDotPlot; for the stable release version, see scDotPlot.

Cluster a Single-cell RNA-seq Dot Plot

Bioconductor version: Development (3.22)

Dot plots of single-cell RNA-seq data allow for an examination of the relationships between cell groupings (e.g. clusters) and marker gene expression. The scDotPlot package offers a unified approach to perform a hierarchical clustering analysis and add annotations to the columns and/or rows of a scRNA-seq dot plot. It works with SingleCellExperiment and Seurat objects as well as data frames.

Author: Benjamin I Laufer [aut, cre], Brad A Friedman [aut]

Maintainer: Benjamin I Laufer <blaufer at gmail.com>

Citation (from within R, enter citation("scDotPlot")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("scDotPlot")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("scDotPlot")
Details biocViews Clustering, DifferentialExpression, GeneExpression, RNASeq, Sequencing, SingleCell, Software, Transcription, Visualization Version 1.3.1 In Bioconductor since BioC 3.20 (R-4.4) (0.5 years) License Artistic-2.0 Depends R (>= 4.4.0) Imports aplot, BiocGenerics, cli, dplyr, ggplot2, ggsci, ggtree, grDevices, magrittr, purrr, rlang, scales, scater, Seurat, SingleCellExperiment, stats, stringr, tibble, tidyr System Requirements URL https://github.com/ben-laufer/scDotPlot Bug Reports https://github.com/ben-laufer/scDotPlot/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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