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basilisk

Freezing Python Dependencies Inside Bioconductor Packages

Bioconductor version: Release (3.17)

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 "4.3") 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

Details

biocViews Infrastructure, Software
Version 1.12.1
In Bioconductor since BioC 3.11 (R-4.0) (3.5 years)
License GPL-3
Depends
Imports utils, methods, parallel, reticulate, dir.expiry, basilisk.utils
Linking To
Suggests knitr, rmarkdown, BiocStyle, testthat, callr
System Requirements
Enhances
URL
Bug Reports https://github.com/LTLA/basilisk/issues
See More
Depends On Me scviR
Imports Me BiocHail, BiocSklearn, cbpManager, cfTools, crisprScore, dasper, densvis, FLAMES, HiCool, MACSr, MOFA2, pareg, Rcwl, recountmethylation, ReUseData, scPipe, SimBu, snifter, spatialDE, VDJdive, velociraptor, zellkonverter
Suggests Me basilisk.utils
Links To Me
Build Report  

Package Archives

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

Source Package basilisk_1.12.1.tar.gz
Windows Binary basilisk_1.11.3.zip
macOS Binary (x86_64)
macOS Binary (arm64) basilisk_1.11.2.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
Old Source Packages for BioC 3.17 Source Archive