basilisk

This is the released version of basilisk; for the devel version, see basilisk.

Freezing Python Dependencies Inside Bioconductor Packages

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DOI: 10.18129/B9.bioc.basilisk

Bioconductor version: Release (3.22)

Installs a self-contained conda instance that is managed by the R/Bioconductor installation machinery. This aims to provide a consistent Python environment that can be used reliably by Bioconductor packages. Functions are also provided to enable smooth interoperability of multiple Python environments in a single R session.

Author: Aaron Lun [aut, cre, cph], Vince Carey [ctb]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

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

Installation

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


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

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("basilisk")

Motivation HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Infrastructure, Software

Version 1.22.0

In Bioconductor since BioC 3.11 (R-4.0) (5.5 years)

License GPL-3

Depends reticulate

Imports utils, methods, parallel, dir.expiry

System Requirements

URL

Bug Reports https://github.com/LTLA/basilisk/issues

Suggests knitr, rmarkdown, BiocStyle, testthat, callr

Linking To

Enhances

Depends On Me scviR

Imports Me BiocHail, BiocSklearn, cbpManager, cfTools, crisprScore, densvis, DNAcycP2, DOtools, FLAMES, Ibex, MACSr, MOFA2, ontoProc, orthos, Rcwl, recountmethylation, ReUseData, scifer, scPipe, SimBu, sketchR, snifter, spatialDE, stPipe, velociraptor, zellkonverter, OSTA

Suggests Me CuratedAtlasQueryR, SUMO

Links To Me

Build Report Build Report

Package Archives

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

Source Package basilisk_1.22.0.tar.gz

Windows Binary (x86_64) basilisk_1.21.5.zip

macOS Binary (x86_64) basilisk_1.22.0.tgz

macOS Binary (arm64) basilisk_1.22.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/basilisk

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/basilisk

Bioc Package Browser https://code.bioconductor.org/browse/basilisk/

Package Short Url https://bioconductor.org/packages/basilisk/

Package Downloads Report Download Stats