snifter

DOI: 10.18129/B9.bioc.snifter    

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

R wrapper for the python openTSNE library

Bioconductor version: Development (3.15)

Provides an R wrapper for the implementation of FI-tSNE from the python package openTNSE. See Poličar et al. (2019) and the algorithm described by Linderman et al. (2018) .

Author: Alan O'Callaghan [aut, cre], Aaron Lun [aut]

Maintainer: Alan O'Callaghan <alan.ocallaghan at outlook.com>

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

Installation

To install this package, start R (version "4.2") and enter:

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

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

BiocManager::install("snifter")

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("snifter")

 

HTML R Script Introduction to snifter
PDF   Reference Manual
Text   NEWS

Details

biocViews DimensionReduction, Sequencing, SingleCell, Software, Visualization
Version 1.5.0
In Bioconductor since BioC 3.12 (R-4.0) (1 year)
License GPL-3
Depends R (>= 4.0.0)
Imports basilisk, reticulate, irlba, stats, assertthat
LinkingTo
Suggests knitr, rmarkdown, scRNAseq, BiocStyle, scater, scran, scuttle, ggplot2, testthat (>= 3.0.0)
SystemRequirements
Enhances
URL
BugReports https://github.com/Alanocallaghan/snifter/issues
Depends On Me OSCA.advanced
Imports Me
Suggests Me scater
Links To Me
Build Report  

Package Archives

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

Source Package snifter_1.5.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra) snifter_1.5.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/snifter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/snifter
Package Short Url https://bioconductor.org/packages/snifter/
Package Downloads Report Download Stats

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