CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation, and visualization
The original R/Bioconductor package CancerSubtypes integrates the current common computational biology methods for cancer subtypes identification and provides a standardized framework for cancer subtype analysis based multi-omics data, such as gene expression, miRNA expression, DNA methylation and others. This is a forked repo that I added additional features such as random seed (for reproducibility) and dependency updates (iCluster is removed from CRAN and there is an updated iClusterPlus).
renv::install("ConsensusClusterPlus")
renv::install("hsiaoyi0504/CancerSubtypes")
Tutorial and examples can be found in original CancerSubtypes here.
Please cite the original CancerSubtypes article and this customized fork https://github.com/hsiaoyi0504/CancerSubtypes when using this customized version:
Xu, T. et al. CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation, and visualization. Bioinformatics (2017) doi:10.1093/bioinformatics/btx378.