OmicsMarkeR

This package is for version 3.10 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see OmicsMarkeR.

Classification and Feature Selection for 'Omics' Datasets

DOI: 10.18129/B9.bioc.OmicsMarkeR

Bioconductor version: 3.10

Tools for classification and feature selection for 'omics' level datasets. It is a tool to provide multiple multivariate classification and feature selection techniques complete with multiple stability metrics and aggregation techniques. It is primarily designed for analysis of metabolomics datasets but potentially extendable to proteomics and transcriptomics applications.

Author: Charles E. Determan Jr. <cdetermanjr at gmail.com>

Maintainer: Charles E. Determan Jr. <cdetermanjr at gmail.com>

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

Installation

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


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

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("OmicsMarkeR")

A Short Introduction to the OmicMarkeR Package PDF R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Classification, FeatureExtraction, Metabolomics, Software

Version 1.18.0

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License GPL-3

Depends R (>= 3.2.0)

Imports graphics, stats, utils, plyr (>= 1.8), data.table (>= 1.9.4), caret (>= 6.0-37), DiscriMiner (>= 0.1-29), e1071 (>= 1.6-1), randomForest (>= 4.6-10), gbm (>= 2.1), pamr (>= 1.54.1), glmnet (>= 1.9-5), caTools (>= 1.14), foreach (>= 1.4.1), permute (>= 0.7-0), assertive (>= 0.3-0), assertive.base (>= 0.0-1)

System Requirements

URL http://github.com/cdeterman/OmicsMarkeR

Bug Reports http://github.com/cdeterman/OmicsMarkeR/issues/new

Suggests testthat, BiocStyle, knitr

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