Package: iCARH
Version: 2.0.2.1
Date: 2020-08-23
Title: Integrative Conditional Autoregressive Horseshoe Model
Authors@R: c(person("Takoua", "Jendoubi", role = c("aut", "cre"), email = "t.jendoubi14@imperial.ac.uk"), person("Timothy M.D.", "Ebbels", role = c("aut"), email = "t.ebbels@imperial.ac.uk") )
Description: Implements the integrative conditional autoregressive horseshoe model 
    discussed in Jendoubi, T., Ebbels, T.M. Integrative analysis of time course metabolic data and biomarker discovery. 
    BMC Bioinformatics 21, 11 (2020) <doi:10.1186/s12859-019-3333-0>.
    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, glue
biocViews:
Imports: RCurl, KEGGgraph, igraph, reshape2, mc2d, abind, Matrix
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
License: GPL (>= 3)
RoxygenNote: 7.1.1
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2020-08-26 14:51:55 UTC; takoua
Author: Takoua Jendoubi [aut, cre],
  Timothy M.D. Ebbels [aut]
Maintainer: Takoua Jendoubi <t.jendoubi14@imperial.ac.uk>
Repository: CRAN
Date/Publication: 2020-08-27 07:50:07 UTC
Built: R 4.6.0; ; 2026-04-26 04:15:51 UTC; unix
