proteomics

DOI: 10.18129/B9.bioc.proteomics    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see proteomics.

Mass spectrometry and proteomics data analysis

Bioconductor version: 3.9

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 <lg390 at cam.ac.uk>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("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")

 

HTML

R Script

An R/Bioc proteomics workflow

Details

biocViews	ImmunoOncologyWorkflow, ProteomicsWorkflow, Workflow
Version	1.8.0
License	Artistic-2.0
Depends	R (>= 3.3.0), mzR, mzID, MSnID, MSnbase, rpx, MLInterfaces, pRoloc, pRolocdata, MSGFplus, rols, hpar
Imports
LinkingTo
Suggests	knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL	https://www.bioconductor.org/help/workflows/proteomics/
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_1.8.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
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/
Package Downloads Report	Download Stats