iCARH

Integrative Conditional Autoregressive Horseshoe Model

Implements the integrative conditional autoregressive horseshoe model discussed in Jendoubi, T., & Ebbels, T. (2018). "Integrative analysis of time course metabolic data and biomarker discovery". arXiv preprint <arXiv:1801.07767>. The model consists in three levels: Metabolic pathways level modeling interdependencies between variables via a conditional auto-regressive (CAR) component , integrative analysis level to identify potential associations between heterogeneous omic variables via a Horseshoe prior and experimental design level to capture experimental design conditions through a mixed-effects model. The package also provides functions to simulate data from the model, construct pathway matrices, post process and plot model parameters.

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Description file content

Package
iCARH
Version
2.0.1.1
Date
2020-12-01
Title
Integrative Conditional Autoregressive Horseshoe Model
Description
Implements the integrative conditional autoregressive horseshoe model discussed in Jendoubi, T., & Ebbels, T. (2018). "Integrative analysis of time course metabolic data and biomarker discovery". arXiv preprint . The model consists in three levels: Metabolic pathways level modeling interdependencies between variables via a conditional auto-regressive (CAR) component , integrative analysis level to identify potential associations between heterogeneous omic variables via a Horseshoe prior and experimental design level to capture experimental design conditions through a mixed-effects model. The package also provides functions to simulate data from the model, construct pathway matrices, post process and plot model parameters.
Depends
rstan, MASS, stats, ggplot2
Imports
RCurl, KEGGgraph, igraph, reshape2, mc2d, abind, Matrix
Suggests
knitr, rmarkdown
VignetteBuilder
knitr
License
GPL (>= 3)
RoxygenNote
7.0.0
Encoding
UTF-8
NeedsCompilation
no
Packaged
2020-01-13 23:05:06 UTC; takoua
Author
Takoua Jendoubi [aut, cre], Timothy M.D. Ebbels [aut]
Maintainer
Takoua Jendoubi
Repository
CRAN
Date/Publication
2020-01-14 06:00:02 UTC

install.packages('iCARH')

2.0.1.1

10 days ago

Takoua Jendoubi

GPL (>= 3)

Depends on

rstan, MASS, stats, ggplot2

Imports

RCurl, KEGGgraph, igraph, reshape2, mc2d, abind, Matrix

Suggests

knitr, rmarkdown

Discussions