Package: bikm1 1.1.0

Valerie Robert

bikm1: Co-Clustering Adjusted Rand Index and Bikm1 Procedure for Contingency and Binary Data-Sets

Co-clustering of the rows and columns of a contingency or binary matrix, or double binary matrices and model selection for the number of row and column clusters. Three models are considered: the Poisson latent block model for contingency matrix, the binary latent block model for binary matrix and a new model we develop: the multiple latent block model for double binary matrices. A new procedure named bikm1 is implemented to investigate more efficiently the grid of numbers of clusters. Then, the studied model selection criteria are the integrated completed likelihood (ICL) and the Bayesian integrated likelihood (BIC). Finally, the co-clustering adjusted Rand index (CARI) to measure agreement between co-clustering partitions is implemented. Robert Valerie, Vasseur Yann, Brault Vincent (2021) <doi:10.1007/s00357-020-09379-w>.

Authors:Valerie Robert [aut, cre]

bikm1_1.1.0.tar.gz
bikm1_1.1.0.tar.gz(r-4.5-noble)bikm1_1.1.0.tar.gz(r-4.4-noble)
bikm1_1.1.0.tgz(r-4.4-emscripten)bikm1_1.1.0.tgz(r-4.3-emscripten)
bikm1.pdf |bikm1.html✨
bikm1/json (API)
NEWS

# Install 'bikm1' in R:
install.packages('bikm1', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

30 exports 1 stars 0.00 score 40 dependencies 1 scripts 312 downloads

Last updated 3 years agofrom:4d4b6fb6a7. Checks:OK: 2. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 01 2024
R-4.5-linuxOKSep 01 2024

Exports:ARIBIKM1_LBM_BinaryBIKM1_LBM_PoissonBIKM1_MLBM_BinaryBinBlocICL_LBMBinBlocICL_MLBMBinBlocRnd_LBMBinBlocRnd_MLBMBinBlocVisu_LBMBinBlocVisu_MLBMBinBlocVisuResum_LBMBinBlocVisuResum_MLBMCARICE_LBMCE_MLBMCE_simpleCoNMIENMIMI_simpleNCE_LBMNCE_simpleplotPoissonBlocBICPoissonBlocICLPoissonBlocRndPoissonBlocVisuPoissonBlocVisuResumprintshowsummary

Dependencies:ade4clicolorspacefansifarverggplot2gluegtablegtoolsisobandlabelinglatticelifecyclelpSolvemagrittrMASSMatrixmgcvmunsellnlmepillarpixmappkgconfigplyrpracmaR6RColorBrewerRcppRcppArmadilloreshape2rlangscalesspstringistringrtibbleutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
bikm1 packagebikm1-package
ARI function for agreement between two partitionsARI
BIKM1_LBM_Binary fitting procedureBIKM1_LBM_Binary
Class "BIKM1_LBM_Binary"BIKM1_LBM_Binary-class
BIKM1_LBM_Poisson fitting procedureBIKM1_LBM_Poisson
Class "BIKM1_LBM_Poisson"BIKM1_LBM_Poisson-class
BIKM1_MLBM_Binary fitting procedureBIKM1_MLBM_Binary
Class "BIKM1_MLBM_Binary"BIKM1_MLBM_Binary-class
BinBlocICL_LBM function for computation of the ICL criterion in the Binary LBMBinBlocICL_LBM
BinBlocICL_MLBM function for computation of the ICL criterion in the MLBMBinBlocICL_MLBM
BinBlocRnd_LBM function for binary data matrix simulationBinBlocRnd_LBM
BinBlocRnd_MLBM function for binary double data matrix simulationBinBlocRnd_MLBM
BinBlocVisu_LBM function for visualization of binary matrix datasetsBinBlocVisu_LBM
BinBlocVisu_MLBM function for visualization of double matrix datasetsBinBlocVisu_MLBM
BinBlocVisuResum_LBM function for visualization of binary matrix data-setsBinBlocVisuResum_LBM
BinBlocVisuResum_MLBM function for visualization of double matrix datasetsBinBlocVisuResum_MLBM
CARI function for agreement between co-clustering partitionsCARI
CE_LBM function for agreement between co-clustering partitionsCE_LBM
CE_MLBM function for agreement between co-clustering partitions in the MBLMCE_MLBM
CE_simple function for agreement between clustering partitionsCE_simple
CoNMI function for agreement between co-clustering partitionsCoNMI
ENMI function for agreement between co-clustering partitionsENMI
MI_simple function for agreement between two partitionsMI_simple
NCE_LBM function for agreement between co-clustering partitions using NCE_simpleNCE_LBM
NCE_simple function for agreement between clustering partitionsNCE_simple
Plot method for a 'BIKM1_LBM_Binary' objectplot,BIKM1_LBM_Binary-method
Plot method for a 'BIKM1_LBM_Poisson' objectplot,BIKM1_LBM_Poisson-method
Plot method for a 'BIKM1_MLBM_Binary' objectplot,BIKM1_MLBM_Binary-method
PoissonBlocBIC function for the computation of the BIC criterion in the Poisson LBMPoissonBlocBIC
PoissonBlocICL function for the computation of the ICL criterion in the Poisson LBMPoissonBlocICL
PoissonBlocRnd function for contingency data simulationPoissonBlocRnd
PoissonBlocVisu function for visualization of contingency datasetsPoissonBlocVisu
PoissonBlocVisuResum function for visualization of contingency datasetsPoissonBlocVisuResum
Print method for a BIKM1_LBM_Binary objectprint,BIKM1_LBM_Binary-method
Print method for a BIKM1_LBM_Poisson objectprint,BIKM1_LBM_Poisson-method
Print method for a BIKM1_MLBM_Binary objectprint,BIKM1_MLBM_Binary-method
Show method for a BIKM1_LBM_Binary objectshow,BIKM1_LBM_Binary-method
Show method for a BIKM1_LBM_Poisson objectshow,BIKM1_LBM_Poisson-method
Show method for a BIKM1_MLBM_Binary objectshow,BIKM1_MLBM_Binary-method
Summary method for a BIKM1_LBM_Binary objectsummary,BIKM1_LBM_Binary-method
Summary method for a BIKM1_LBM_Poisson objectsummary,BIKM1_LBM_Poisson-method
Summary method for a BIKM1_MLBM_Binary objectsummary,BIKM1_MLBM_Binary-method