Doscheda

DOI: 10.18129/B9.bioc.Doscheda    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see Doscheda.

A DownStream Chemo-Proteomics Analysis Pipeline

Bioconductor version: 3.11

Doscheda focuses on quantitative chemoproteomics used to determine protein interaction profiles of small molecules from whole cell or tissue lysates using Mass Spectrometry data. The package provides a shiny application to run the pipeline, several visualisations and a downloadable report of an experiment.

Author: Bruno Contrino, Piero Ricchiuto

Maintainer: Bruno Contrino <br1contrino at yahoo.co.uk>

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

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("Doscheda")

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("Doscheda")

 

HTML R Script Doscheda
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, MassSpectrometry, Normalization, Preprocessing, Proteomics, QualityControl, Regression, Software
Version 1.10.4
In Bioconductor since BioC 3.6 (R-3.4) (3 years)
License GPL-3
Depends R (>= 3.4)
Imports methods, drc, stats, httr, jsonlite, reshape2, vsn, affy, limma, stringr, ggplot2, graphics, grDevices, calibrate, corrgram, gridExtra, DT, shiny, shinydashboard, readxl, prodlim, matrixStats
LinkingTo
Suggests BiocStyle, knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package Doscheda_1.10.4.tar.gz
Windows Binary Doscheda_1.10.4.zip
macOS 10.13 (High Sierra) Doscheda_1.10.4.tgz
Source Repository git clone https://git.bioconductor.org/packages/Doscheda
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Doscheda
Package Short Url https://bioconductor.org/packages/Doscheda/
Package Downloads Report Download Stats

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