Package: iClusterPlus 1.43.1

Qianxing Mo

iClusterPlus: Integrative clustering of multi-type genomic data

Integrative clustering of multiple genomic data using a joint latent variable model.

Authors:Qianxing Mo, Ronglai Shen

# Install 'iClusterPlus' in R:

install.packages('iClusterPlus', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Uses libs:

Datasets:

breast.chr17 - Breast cancer data set DNA copy number and mRNA expression measure on chromosome 17
coord - Genomic coordinates
gbm.exp - GBM data
gbm.mut - GBM data
gbm.seg - GBM data
glp - Good lattice points using the uniform design
simuResult - The results for the analysis of the simulated data.
variation.hg18.v10.nov.2010 - Human genome variants of the NCBI 36 (hg18) assembly

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

Last updated 2 months agofrom:7a3601fca5. Checks:1 OK, 8 NOTE. Indexed: yes.

Dependencies:

Last update: 2018-10-11
Started: 2014-01-27

Help page	Topics
Breast cancer data set DNA copy number and mRNA expression measure on chromosome 17	breast.chr17
A function to remove redundant copy number regions	CNregions
A function to compute the proportion of deviation from perfect block diagonal matrix	compute.pod
genomic coordinates	coord
GBM data	gbm.exp gbm.mut gbm.seg
good lattice points using the uniform design	glp
Integrative clustering of multiple genomic data types	iCluster
Integrative clustering of multiple genomic data types	iCluster2
Integrative clustering of multiple genomic data types	iClusterBayes
Integrative clustering of multiple genomic data types	iClusterPlus
A function to generate heatmap panels sorted by integrated cluster assignment.	plotHeatmap
A function to generate heatmap panels sorted by integrated cluster assignment.	plotHMBayes
A function to generate cluster separability matrix plot.	plotiCluster
A function to generate reproducibility index plot.	plotRI
The results for the analysis of the simulated data.	simuResult
Integrative clustering of multiple genomic data types	tune.iCluster2
Integrative clustering of multiple genomic data	tune.iClusterBayes
Integrative clustering of multiple genomic data	tune.iClusterPlus
Utility functions for iClusterPlus package	getBIC getClusters getDevR iManual
Human genome variants of the NCBI 36 (hg18) assembly	variation.hg18.v10.nov.2010