proteomics

This package is for version 3.13 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see proteomics.

Mass spectrometry and proteomics data analysis

DOI: 10.18129/B9.bioc.proteomics

Bioconductor version: 3.13

This workflow illustrates R / Bioconductor infrastructure for proteomics. Topics covered focus on support for open community-driven formats for raw data and identification results, packages for peptide-spectrum matching, data processing and analysis.

Author: Laurent Gatto [aut, cre]

Maintainer: Laurent Gatto <laurent.gatto at uclouvain.be>

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

Installation

To install this package, start R (version "4.1") and enter:


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

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("proteomics")

An R/Bioc proteomics workflow HTML R Script

Need some help? Ask on the Bioconductor Support site!

Details

biocViews ImmunoOncologyWorkflow, ProteomicsWorkflow, Workflow

Version 1.16.0

License Artistic-2.0

Depends R (>= 3.3.0), mzR, mzID, MSnID, MSnbase, rpx, MLInterfaces, pRoloc, pRolocdata, MSGFplus, rols, hpar

Imports

System Requirements

URL https://www.bioconductor.org/help/workflows/proteomics/

Suggests knitr, rmarkdown, BiocStyle

Linking To

Enhances

Depends On Me

Imports Me

Suggests Me

Links To Me

Package Archives

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

Source Package proteomics_1.16.0.tar.gz

Windows Binary

macOS 10.13 (High Sierra)

Source Repository git clone https://git.bioconductor.org/packages/proteomics

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/proteomics

Package Short Url https://bioconductor.org/packages/proteomics/

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