Bioconductor - scDataviz

Bioconductor - scDataviz
Bioconductor 3.22
Software Packages
scDataviz
scDataviz
This is the
released
version of scDataviz; for the devel version, see
scDataviz
scDataviz: single cell dataviz and downstream analyses
DOI:
10.18129/B9.bioc.scDataviz
Bioconductor version:
Release (3.22)
In the single cell World, which includes flow cytometry, mass cytometry, single-cell RNA-seq (scRNA-seq), and others, there is a need to improve data visualisation and to bring analysis capabilities to researchers even from non-technical backgrounds. scDataviz attempts to fit into this space, while also catering for advanced users. Additonally, due to the way that scDataviz is designed, which is based on SingleCellExperiment, it has a 'plug and play' feel, and immediately lends itself as flexibile and compatibile with studies that go beyond scDataviz. Finally, the graphics in scDataviz are generated via the ggplot engine, which means that users can 'add on' features to these with ease.
Author:
Kevin Blighe [aut, cre]
Maintainer:
Kevin Blighe
Citation (from within R, enter
citation("scDataviz")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("scDataviz")
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("scDataviz")
scDataviz: single cell dataviz and downstream analyses
HTML
R Script
Reference Manual
PDF
NEWS
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DataImport
FlowCytometry
GeneExpression
ImmunoOncology
MassSpectrometry
RNASeq
SingleCell
Software
Transcription
Version
1.20.0
In Bioconductor since
BioC 3.12 (R-4.0) (5.5 years)
License
GPL-3
Depends
R (>= 4.0),
S4Vectors
SingleCellExperiment
Imports
ggplot2
ggrepel
flowCore
umap
Seurat
reshape2
scales
RColorBrewer
corrplot
, stats, grDevices, graphics, utils,
MASS
matrixStats
, methods
System Requirements
URL
Bug Reports
See More
Suggests
PCAtools
cowplot
BiocGenerics
RUnit
knitr
kableExtra
rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
scDataviz_1.20.0.tar.gz
Windows Binary (x86_64)
scDataviz_1.20.0.zip
(64-bit only)
macOS Binary (x86_64)
scDataviz_1.20.0.tgz
macOS Binary (arm64)
scDataviz_1.20.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/scDataviz
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/scDataviz
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