cvmm-class: The cvmm Class.

In MicrobiomeSurv: Biomarker Validation for Microbiome-Based Survival Classification and Prediction

The cvmm Class.

Description

Class of object returned by function CVMSpecificCoxPh.

Usage

## S4 method for signature 'cvmm'
show(object)

## S4 method for signature 'cvmm'
summary(object, which = 1)

## S4 method for signature 'cvmm,ANY'
plot(x, y, which = 1, ...)

Arguments

object	A CVMSpecificCoxPh class object
which	This specify which taxon for which estimated HR information need to be visualized. By default results of the first taxon is used.
x	A CVMSpecificCoxPh class object CVMSpecificCoxPh
y	missing
...	The usual extra arguments to generic functions — see plot, plot.default

Details

plot signature(x = "cvmm"): Plots for CVMSpecificCoxPh class analysis results.

Any parameters of plot.default may be passed on to this particular plot method.

Slots

HRTrain

A 3-way array, The first dimension is the number of taxa, the second dimension is the HR statistics for the low risk group in the train dataset (HR,1/HR LCI, UCI) while the third dimension is the number of cross validation performed.

HRTest

A 3-way array, The first dimension is the number of taxa, the second dimension is the HR statistics for the low risk group in the test dataset (HR,1/HR LCI, UCI) while the third dimension is the number of cross validation performed.

train

The selected subjects for each CV in the train dataset.

test

The selected subjects for each CV in the test dataset.

n.mi

The number of taxa used in the analysis.

Ncv

The number of cross validation performed.

Rdata

The microbiome data matrix that was used for the analysis either same as Micro.mat or a reduced version

Author(s)

Thi Huyen Nguyen, [e-mail]

Olajumoke Evangelina Owokotomo, [e-mail]

Ziv Shkedy

See Also

CVMSpecificCoxPh

MicrobiomeSurv documentation built on Oct. 12, 2023, 9:06 a.m.