Package: ClassDiscovery 3.4.5
Kevin R. Coombes
ClassDiscovery: Classes and Methods for "Class Discovery" with Microarrays or Proteomics
Defines the classes used for "class discovery" problems in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class discovery primarily consists of unsupervised clustering methods with attempts to assess their statistical significance.
Authors:
ClassDiscovery_3.4.5.tar.gz
ClassDiscovery_3.4.5.zip(r-4.5)ClassDiscovery_3.4.5.zip(r-4.4)ClassDiscovery_3.4.5.zip(r-4.3)
ClassDiscovery_3.4.5.tgz(r-4.4-any)ClassDiscovery_3.4.5.tgz(r-4.3-any)
ClassDiscovery_3.4.5.tar.gz(r-4.5-noble)ClassDiscovery_3.4.5.tar.gz(r-4.4-noble)
ClassDiscovery_3.4.5.tgz(r-4.4-emscripten)ClassDiscovery_3.4.5.tgz(r-4.3-emscripten)
ClassDiscovery.pdf |ClassDiscovery.html✨
ClassDiscovery/json (API)
NEWS
| # Install 'ClassDiscovery' in R: |
| install.packages('ClassDiscovery', repos = c('https://r-forge.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://r-forge.r-project.org/projects/oompa
Last updated 3 months agofrom:ff29702983. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 10 2024 |
| R-4.5-win | OK | Dec 10 2024 |
| R-4.5-linux | OK | Dec 10 2024 |
| R-4.4-win | OK | Dec 10 2024 |
| R-4.4-mac | OK | Dec 10 2024 |
| R-4.3-win | OK | Dec 10 2024 |
| R-4.3-mac | OK | Dec 10 2024 |
Exports:as.data.frameaspectHeatmapBootstrapClusterTestcluster3cutHclustcutKmeanscutPamcutRepeatedKmeansdistanceMatrixGenePCAhistidentifyimagemahalanobisQCMosaicPCanovapccPerturbationClusterTestplotplotColoredClusterspltreepredictrepeatedKmeansSamplePCAscreeplotsummarytext
Dependencies:BiobaseBiocGenericsclustergenericsmclustoompaBaseoompaData
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Heatmap with control over the aspect ratio | aspectHeatmap |
| Class "BootstrapClusterTest" | BootstrapClusterTest BootstrapClusterTest-class summary,BootstrapClusterTest-method |
| Cluster a Dataset Three Ways | cluster3 |
| Class "ClusterTest" | ClusterTest ClusterTest-class hist,ClusterTest-method image,ClusterTest-method summary,ClusterTest-method |
| Distance Matrix Computation | distanceMatrix |
| Class "GenePCA" | GenePCA GenePCA-class plot,GenePCA,missing-method |
| Class "hclust" | hclust-class |
| Get the List of Classes From A Clustering Algorithm | cutHclust cutKmeans cutPam cutRepeatedKmeans repeatedKmeans |
| Using Mahalanobis Distance and PCA for Quality Control | mahalanobisQC |
| Class "Mosaic" | Mosaic Mosaic-class plot,Mosaic,missing-method pltree,Mosaic-method summary,Mosaic-method |
| Class "PCanova" | PCanova PCanova-class plot,PCanova,missing-method pltree,PCanova-method summary,PCanova-method |
| The PerturbationClusterTest Class | PerturbationClusterTest PerturbationClusterTest-class summary,PerturbationClusterTest-method |
| Plot Dendrograms with Color-Coded Labels | pcc plotColoredClusters |
| Class "SamplePCA" | identify,SamplePCA-method plot,SamplePCA,missing-method predict,SamplePCA-method SamplePCA SamplePCA-class screeplot,SamplePCA-method summary,SamplePCA-method text,SamplePCA-method |