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 (3.21)
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] (ORCID:
Maintainer: Oliver M. Crook <oliver.crook at stats.ox.ac.uk>
citation("bandle")):
Installation
To install this package, start R (version "4.5") 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 | ||
| NEWS | Text |
Details
| biocViews | Bayesian, Classification, Clustering, DataImport, ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software |
| Version | 1.11.0 |
| In Bioconductor since | BioC 3.15 (R-4.2) (2.5 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, RColorBrewer, gtools, gridExtra, coda (>= 0.19-4) |
| System Requirements | |
| URL | http://github.com/ococrook/bandle |
| Bug Reports | https://github.com/ococrook/bandle/issues |
See More
| Suggests | 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_1.11.0.tar.gz |
| Windows Binary (x86_64) | bandle_1.11.0.zip (64-bit only) |
| macOS Binary (x86_64) | bandle_1.11.0.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 |