Title: Change Point Detection in Dynamic Graphs
Author: Marco Corneli, Pierre Latouche, Fabrice Rossi, Margot Selosse
Description: Implementation of a model-based approach for clustering and multiple change points in dynamic graphs (Marco Corneli, Pierre Latouche and Fabrice Rossi (2018) <doi.org/10.1007/s11222-017-9775-1>).
Imports: Rcpp (>= 0.12.17), mclust, RColorBrewer, igraph

Title: CpG Filtering Method Based on Intra-class Correlation
Description: Filter CpGs based on Intra-class Correlation Coefficients (ICCs) when replicates are available. ICCs are calculated by fitting linear mixed effects models to all samples including the un-replicated samples. Including the large number of un-replicated samples improves ICC estimates dramatically. The method accommodates any replicate design.

Title: CpG Filtering Method Based on Intra-Class Correlation

Package: CpGassoc
Type: Package
Title: Association between Methylation and a phenotype of interest
Version: 1.00
Date: 2012-05-10
Author: Barfield, R., Conneely, K., Kilaru,V
Maintainer: R Barfield <richard.thomas.barfield@emory.edu>
Description: CpGassoc is designed to test for association between
methylation at CpG sites across the genome and a phenotype of
interest, adjusting for any relevant covariates. The package
can perform standard analyses of large datasets very quickly
with no need to impute the data. It can also handle mixed
effects models with chip or batch entering the model as a
random intercept.  CpGassoc also includes tools to apply
quality control filters, perform permutation tests, and create
QQ plots, manhattan plots, and scatterplots for individual CpG
sites.
Depends: R (>= 2.10), nlme
Suggests: qvalue
License: GPL (>= 2)
Packaged: 2012-05-21 19:11:49 UTC; rbarfield
Repository: CRAN
Date/Publication: 2012-05-22 05:54:48

Package: CpGassoc
Type: Package
Title: Association between Methylation and a phenotype of interest
Version: 1.1
Date: 2012-05-25
Author: Barfield, R., Conneely, K., Kilaru,V
Maintainer: R Barfield <richard.thomas.barfield@emory.edu>
Description: CpGassoc is designed to test for association between
methylation at CpG sites across the genome and a phenotype of
interest, adjusting for any relevant covariates. The package
can perform standard analyses of large datasets very quickly
with no need to impute the data. It can also handle mixed
effects models with chip or batch entering the model as a
random intercept.  CpGassoc also includes tools to apply
quality control filters, perform permutation tests, and create
QQ plots, manhattan plots, and scatterplots for individual CpG
sites.
Depends: R (>= 2.10), nlme
Suggests: qvalue
License: GPL (>= 2)
Packaged: 2012-05-25 15:28:04 UTC; rbarfield
Repository: CRAN
Date/Publication: 2012-05-26 14:02:14