Summary | Prerequisites | Example I: TCGA glioblastoma dataset | Exploratory data analysis | Running M3C | Understanding M3C outputs | Visual check of consensus cluster structure | Example II: Regularised consensus clustering | Running regularised consensus clustering | Example III: Entropy objective function | Additional functions | Filtering features by variance | Closing comments | References
Package: M3C 1.35.0
Christopher John
M3C: Monte Carlo Reference-based Consensus Clustering
M3C is a consensus clustering algorithm that uses a Monte Carlo simulation to eliminate overestimation of K and can reject the null hypothesis K=1.
Authors:
M3C_1.35.0.tar.gz
M3C_1.35.0.zip(r-4.7)M3C_1.35.0.zip(r-4.6)M3C_1.35.0.zip(r-4.5)
M3C_1.35.0.tgz(r-4.6-any)M3C_1.35.0.tgz(r-4.5-any)
M3C_1.35.0.tar.gz(r-4.7-any)M3C_1.35.0.tar.gz(r-4.6-any)
M3C_1.35.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
M3C/json (API)
| # Install 'M3C' in R: |
| install.packages('M3C', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
On BioConductor:M3C-1.35.0(bioc 3.24)M3C-1.34.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
clusteringgeneexpressiontranscriptionrnaseqsequencingimmunooncology
Last updated from:38ef2c3296. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 160 | ||
| linux-devel-x86_64 | NOTE | 203 | ||
| source / vignettes | OK | 208 | ||
| linux-release-x86_64 | NOTE | 196 | ||
| macos-release-arm64 | NOTE | 103 | ||
| macos-oldrel-arm64 | NOTE | 103 | ||
| windows-devel | NOTE | 123 | ||
| windows-release | NOTE | 128 | ||
| windows-oldrel | NOTE | 118 | ||
| wasm-release | OK | 150 |
Exports:clustersimfeaturefilterM3Cpcatsneumap
Dependencies:askpasscliclustercodetoolscorpcorcpp11doParalleldoSNOWfarverforeachggplot2gluegtablehereisobanditeratorsjsonlitelabelinglatticelifecycleMatrixmatrixcalcopensslpngR6rappdirsRColorBrewerRcppRcppEigenRcppTOMLreticulaterlangrprojrootRSpectraRtsneS7scalessnowsysumapvctrsviridisLitewithr
