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snifter

R wrapper for the python openTSNE library


Bioconductor version: Release (3.18)

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 "4.3") and enter:


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

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")
Introduction to snifter HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews DimensionReduction, Sequencing, SingleCell, Software, Visualization
Version 1.12.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-3
Depends R (>= 4.0.0)
Imports basilisk, reticulate, irlba, stats, assertthat
System Requirements
URL https://bioconductor.org/packages/snifter
Bug Reports https://github.com/Alanocallaghan/snifter/issues
See More
Suggests knitr, rmarkdown, BiocStyle, ggplot2, testthat (>= 3.0.0)
Linking To
Enhances
Depends On Me OSCA.advanced
Imports Me
Suggests Me scater
Links To Me
Build Report Build Report

Package Archives

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

Source Package snifter_1.12.0.tar.gz
Windows Binary snifter_1.12.0.zip
macOS Binary (x86_64) snifter_1.12.0.tgz
macOS Binary (arm64) snifter_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/snifter
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/snifter
Bioc Package Browser https://code.bioconductor.org/browse/snifter/
Package Short Url https://bioconductor.org/packages/snifter/
Package Downloads Report Download Stats