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eNetXplorer (version 1.1.2)

Quantitative Exploration of Elastic Net Families for Generalized Linear Models

Description

Provides a quantitative toolkit to explore elastic net families and to uncover correlates contributing to prediction under a cross-validation framework. Fits linear, binomial (logistic), multinomial and Cox regression models. Candia J and Tsang JS, BMC Bioinformatics (2019) 20:189 .

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Version

Install

install.packages('eNetXplorer')

Monthly Downloads

28

Version

1.1.2

License

GPL-3

Maintainer

Julian Candia

Last Published

August 29th, 2020

Functions in eNetXplorer (1.1.2)

generates plain text files from eNetXplorer object

generates family of elastic net models for different alphas

synthetic dataset

breastCancerSurv

gene signature for breast cancer survival

microRNA expression of acute leukemia phenotypes (full dataset)

microRNA expression of acute leukemia phenotypes

generates summary plots of model performance across alpha

generates time-dependent ROC plots from Cox predicted risks

plotKaplanMeier

generates Kaplan-Meier plot of survival probability as a function of time

plotFeatureHeatmap

generates heatmap plot of feature statistics

merges eNetXplorer objects with different alphas

eNetXplorer-internal

Internal eNetXplorer functions

generates plots from eNetXplorer object

eNetXplorer-package

explores elastic net families for generalized linear models

plotContingency

generates plot of response vs out-of-bag predictions across classes

longitudinal cell population frequencies and titer response upon H1N1 vaccination

microRNA expression of acute leukemia phenotypes (filtered dataset)

generates plot of quality function across lambda

generates list of model statistics

generates PDF report with summary of main results

plotMeasuredVsOOB

generates plot of response vs out-of-bag predictions across instances

plotFeatureCaterpillar

generates caterpillar plot of feature statistics