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coda4microbiome (version 0.2.4)

Compositional Data Analysis for Microbiome Studies

Description

Functions for microbiome data analysis that take into account its compositional nature. Performs variable selection through penalized regression for both, cross-sectional and longitudinal studies, and for binary and continuous outcomes.

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Version

Install

install.packages('coda4microbiome')

Monthly Downloads

264

Version

0.2.4

License

MIT + file LICENSE

Maintainer

Toni Susin

Last Published

July 17th, 2024

Functions in coda4microbiome (0.2.4)

logratios_matrix

logratios_matrix
ecam_filtered

ecam_filtered
shannon_sim

shannon_sim
metadata

ecam_filtered
shannon_effnum

shannon_effnum
shannon

shannon
sCD14

sCD14
y_Crohn

Crohn
plot_riskscore

plot_riskscore
y_HIV

HIV
taxanames

ecam_filtered
plotMedianCurve

plotMedianCurve
plot_prediction

plot_prediction
x

data_survival
integralFun

integralFun
plot_signature

plot_signature
plot_signature_curves

plot_signature_curves
plot_survcurves

plot_survcurves
x_HIV

HIV
y_sCD14

sCD14
x_Crohn

Crohn
x_ecam

ecam_filtered
x_sCD14

sCD14
MSM_HIV

HIV
coda_coxnet

coda_coxnet
coda_glmnet_longitudinal

coda_glmnet_longitudinal
coda_glmnet0

coda_glmnet0
HIV

HIV
Event_time

data_survival
coda4microbiome

coda4microbiome: Compositional Data Analysis for Microbiome Studies
Crohn

Crohn
coda_glmnet

coda_glmnet
coda_glmnet_null

coda_glmnet_null
explore_zeros

explore_zeros
filter_longitudinal

filter_longitudinal
coda_glmnet_longitudinal0

coda_glmnet_longitudinal0
coda_glmnet_longitudinal_null

coda_glmnet_longitudinal_null
impute_zeros

impute_zeros
Event

data_survival
explore_logratios

explore_logratios
explore_lr_longitudinal

explore_lr_longitudinal