Welcome to the new bioconductor.org!

bandle

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

An R package for the Bayesian analysis of differential subcellular localisation experiments


Bioconductor version: Development (3.19)

The Bandle package enables the analysis and visualisation of differential localisation experiments using mass-spectrometry data. Experimental methods supported include dynamic LOPIT-DC, hyperLOPIT, Dynamic Organellar Maps, Dynamic PCP. It provides Bioconductor infrastructure to analyse these data.

Author: Oliver M. Crook [aut, cre] , Lisa Breckels [aut]

Maintainer: Oliver M. Crook <oliver.crook at stats.ox.ac.uk>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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

BiocManager::install("bandle")

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("bandle")
Analysing differential localisation experiments with BANDLE: Vignette 1 HTML R Script
Analysing differential localisation experiments with BANDLE: Vignette 2 HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Bayesian, Classification, Clustering, DataImport, ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.7.0
In Bioconductor since BioC 3.15 (R-4.2) (2 years)
License Artistic-2.0
Depends R (>= 4.1), S4Vectors, Biobase, MSnbase, pRoloc
Imports Rcpp (>= 1.0.4.6), pRolocdata, lbfgs, ggplot2, dplyr, plyr, knitr, methods, BiocParallel, robustbase, BiocStyle, ggalluvial, ggrepel, tidyr, circlize, graphics, stats, utils, grDevices, rlang
System Requirements
URL http://github.com/ococrook/bandle
Bug Reports https://github.com/ococrook/bandle/issues
See More
Suggests coda (>= 0.19-4), testthat, interp, fields, pheatmap, viridis, rmarkdown, spelling
Linking To Rcpp, RcppArmadillo, BH
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 bandle_1.7.0.tar.gz
Windows Binary bandle_1.7.0.zip (64-bit only)
macOS Binary (x86_64) bandle_1.7.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/bandle
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/bandle
Bioc Package Browser https://code.bioconductor.org/browse/bandle/
Package Short Url https://bioconductor.org/packages/bandle/
Package Downloads Report Download Stats