schex

DOI: 10.18129/B9.bioc.schex    

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

Hexbin plots for single cell omics data

Bioconductor version: Development (3.11)

Builds hexbin plots for variables and dimension reduction stored in single cell omics data such as SingleCellExperiment and SeuratObject. The ideas used in this package are based on the excellent work of Dan Carr, Nicholas Lewin-Koh, Martin Maechler and Thomas Lumley.

Author: Saskia Freytag

Maintainer: Saskia Freytag <saskia.freytag at perkins.uwa.edu.au>

Citation (from within R, enter citation("schex")):

Installation

To install this package, start R (version "4.0") and enter:

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

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

BiocManager::install("schex")

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("schex")

 

HTML R Script Seurat_schex
HTML R Script shiny_schhex
HTML R Script using_schex
PDF   Reference Manual
Text   NEWS

Details

biocViews DimensionReduction, Sequencing, SingleCell, Software, Visualization
Version 1.1.0
In Bioconductor since BioC 3.10 (R-3.6) (< 6 months)
License GPL-3
Depends SingleCellExperiment(>= 1.7.4), Seurat, ggplot2
Imports hexbin, stats, methods, cluster, dplyr, entropy
LinkingTo
Suggests ggrepel, knitr, rmarkdown, testthat (>= 2.1.0), covr, TENxPBMCData, scater, shinydashboard, iSEE, igraph, scran
SystemRequirements
Enhances
URL https://github.com/SaskiaFreytag/schex
BugReports https://github.com/SaskiaFreytag/schex/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package schex_1.1.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/schex
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/schex
Package Short Url https://bioconductor.org/packages/schex/
Package Downloads Report Download Stats

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