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MSstatsSampleSize

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This is the development version of MSstatsSampleSize; for the stable release version, see MSstatsSampleSize.

Simulation tool for optimal design of high-dimensional MS-based proteomics experiment

Bioconductor version: Development (3.18)

The packages estimates the variance in the input protein abundance data and simulates data with predefined number of biological replicates based on the variance estimation. It reports the mean predictive accuracy of the classifier and mean protein importance over multiple iterations of the simulation.

Author: Ting Huang [aut, cre], Meena Choi [aut], Olga Vitek [aut]

Maintainer: Ting Huang <thuang0703 at gmail.com>

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

Installation

To install this package, start R (version "4.3") and enter: 

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("MSstatsSampleSize")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews Classification, DifferentialExpression, ExperimentalDesign, MassSpectrometry, PrincipalComponent, Proteomics, Software, Visualization
Version 1.15.1
In Bioconductor since BioC 3.10 (R-3.6) (4 years)
License Artistic-2.0
Depends R (>= 3.6)
Imports ggplot2, BiocParallel, caret, gridExtra, reshape2, stats, utils, grDevices, graphics, MSstats
Linking To
Suggests BiocStyle, knitr, rmarkdown, testthat
System Requirements
Enhances
URL http://msstats.org
Bug Reports https://groups.google.com/forum/#!forum/msstats
See More
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
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/MSstatsSampleSize
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MSstatsSampleSize
Package Short Url https://bioconductor.org/packages/MSstatsSampleSize/
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