Pbase

DOI: 10.18129/B9.bioc.Pbase    

Manipulating and exploring protein and proteomics data

Bioconductor version: Release (3.6)

A set of classes and functions to investigate and understand protein sequence data in the context of a proteomics experiment.

Author: Laurent Gatto [aut], Sebastian Gibb [aut, cre]

Maintainer: Sebastian Gibb <mail at sebastiangibb.de>, Laurent Gatto <lg390 at cam.ac.uk>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Pbase")

Documentation

HTML	R Script	Pbase data
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, DataRepresentation, Infrastructure, MassSpectrometry, Proteomics, Software, Visualization
Version	0.18.0
In Bioconductor since	BioC 3.1 (R-3.2) (3 years)
License	GPL-3
Depends	R (>= 2.10), methods, BiocGenerics, Rcpp, Gviz
Imports	cleaver(>= 1.3.6), Biobase, Biostrings, IRanges, S4Vectors, mzID, mzR(>= 1.99.1), MSnbase(>= 1.15.5), Pviz, biomaRt, GenomicRanges, rtracklayer, ensembldb(>= 1.99.13), BiocParallel, AnnotationFilter
LinkingTo
Suggests	testthat (>= 0.8), ggplot2, BSgenome.Hsapiens.NCBI.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene, AnnotationHub, knitr, rmarkdown, BiocStyle, EnsDb.Hsapiens.v86(>= 2.0.0)
SystemRequirements
Enhances
URL	https://github.com/ComputationalProteomicsUnit/Pbase
BugReports	https://github.com/ComputationalProteomicsUnit/Pbase/issues
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	Pbase_0.18.0.tar.gz
Windows Binary	Pbase_0.18.0.zip
Mac OS X 10.11 (El Capitan)	Pbase_0.18.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Pbase
Package Short Url	http://bioconductor.org/packages/Pbase/
Package Downloads Report	Download Stats