Doscheda
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see Doscheda.
A DownStream Chemo-Proteomics Analysis Pipeline
Bioconductor version: 3.9
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("Doscheda")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| Doscheda | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, ImmunoOncology, MassSpectrometry, Normalization, Preprocessing, Proteomics, QualityControl, Regression, Software |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (6.5 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, d3heatmap, prodlim, matrixStats |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | Doscheda_1.6.0.tar.gz |
| Windows Binary | Doscheda_1.6.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | Doscheda_1.6.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/Doscheda |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Doscheda |
| Bioc Package Browser | https://code.bioconductor.org/browse/Doscheda/ |
| Package Short Url | https://bioconductor.org/packages/Doscheda/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |