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bandle

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

Bioconductor version: 3.23 · Package version: 1.16.0

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.

Installation

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

BiocManager::install("bandle")

Details

MaintainerOliver M. Crook <oliver.crook@stats.ox.ac.uk>
AuthorOliver M. Crook [aut, cre] (ORCID: <https://orcid.org/0000-0001-5669-8506>), Lisa Breckels [aut] (ORCID: <https://orcid.org/0000-0001-8918-7171>)
LicenseArtistic-2.0
URLhttp://github.com/ococrook/bandle
Bug Reportshttps://github.com/ococrook/bandle/issues
Downloads rank275
Source branchRELEASE_3_23
biocViewsBayesian, Classification, Clustering, DataImport, ImmunoOncology, MassSpectrometry, Proteomics, QualityControl, Software

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Dependencies

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)

LinkingTo: Rcpp, RcppArmadillo, BH

Suggests: testthat, interp, fields, pheatmap, viridis, rmarkdown, spelling