eNetXplorer-package | R Documentation |
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.
Package: | eNetXplorer |
Type: | Package |
Version: | 1.1.3 |
Date: | 2021-11-03 |
License: | GPL-3 |
This package provides a full pipeline of analysis:
eNetXplorer
takes in x
, y
data to generate a family of elastic net models over a range of alpha
values;
summary
generates a summary of results in tabular format; plot
provides a variety of plots to visualize results; summaryPDF
generates a
report in PDF format; export
creates plain text output files for downstream
processing; and mergeObj
merges eNetXplorer
objects with different alpha
values.
Julian Candia and John S. Tsang
Maintainer: Julian Candia julian.candia@nih.gov
Candia J and Tsang JS. eNetXplorer: an R package for the quantitative exploration of elastic net families for generalized linear models, BMC Bioinformatics (2019) 20:189.
eNetXplorer
, summary
, plot
, summaryPDF
, export
, mergeObj
.
data(QuickStartEx)
fit = eNetXplorer(x=QuickStartEx$predictor,y=QuickStartEx$response,
family="gaussian",n_run=20,n_perm_null=10,seed=111)
summary(fit)
plot(x=fit,plot.type="measuredVsOOB",alpha.index=4)
summaryPDF(x=fit,dest_dir=tempdir())
export(x=fit,dest_dir=tempdir())
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