Package: ClassComparison 3.3.2
Kevin R. Coombes
ClassComparison: Classes and Methods for "Class Comparison" Problems on Microarrays
Defines the classes used for "class comparison" problems in the OOMPA project (<http://oompa.r-forge.r-project.org/>). Class comparison includes tests for differential expression; see Simon's book for details on typical problem types.
Authors:
ClassComparison_3.3.2.tar.gz
ClassComparison_3.3.2.zip(r-4.5)ClassComparison_3.3.2.zip(r-4.4)ClassComparison_3.3.2.zip(r-4.3)
ClassComparison_3.3.2.tgz(r-4.4-any)ClassComparison_3.3.2.tgz(r-4.3-any)
ClassComparison_3.3.2.tar.gz(r-4.5-noble)ClassComparison_3.3.2.tar.gz(r-4.4-noble)
ClassComparison_3.3.2.tgz(r-4.4-emscripten)ClassComparison_3.3.2.tgz(r-4.3-emscripten)
ClassComparison.pdf |ClassComparison.html✨
ClassComparison/json (API)
NEWS
| # Install 'ClassComparison' in R: |
| install.packages('ClassComparison', repos = c('https://r-forge.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://r-forge.r-project.org/projects/oompa
microarraydifferentialexpressionmultiplecomparisons
Last updated 3 months agofrom:ff29702983. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 16 2024 |
| R-4.5-win | OK | Dec 16 2024 |
| R-4.5-linux | OK | Dec 16 2024 |
| R-4.4-win | OK | Dec 16 2024 |
| R-4.4-mac | OK | Dec 16 2024 |
| R-4.3-win | OK | Dec 16 2024 |
| R-4.3-mac | OK | Dec 16 2024 |
Exports:anovaas.data.frameBumcountSignificantcutoffSignificantDudoitdwilhistimagelikelihoodBumMultiLinearModelMultiTtestMultiTtestPairedMultiTtestUnequalmultiTukeyMultiWilcoxonTestplotprobDiffrankSumSamselectSignificantshowSingleGroupSmoothTtestsummaryTNoMTwoGroupStatsupdate
Dependencies:BiobaseBiocGenericsclustergenericsoompaBase
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Class "Bum" | Bum Bum-class countSignificant,Bum-method cutoffSignificant,Bum-method hist,Bum-method image,Bum-method likelihoodBum selectSignificant,Bum-method summary,Bum-method |
| Class "BumSummary" | BumSummary BumSummary-class show,BumSummary-method |
| Class "Dudoit" | countSignificant,Dudoit-method cutoffSignificant,Dudoit-method Dudoit Dudoit-class plot,Dudoit,missing-method selectSignificant,Dudoit-method |
| Wilcoxon Density Function | dwil |
| Class "MultiLinearModel" | anova,MultiLinearModel-method as.data.frame,MultiLinearModel-method hist,MultiLinearModel-method MultiLinearModel MultiLinearModel-class multiTukey plot,MultiLinearModel,ANY-method plot,MultiLinearModel,missing-method summary,MultiLinearModel-method |
| Class "MultiTtest" | as.data.frame,MultiTtest-method hist,MultiTtest-method MultiTtest MultiTtest-class plot,MultiTtest,ANY-method plot,MultiTtest,missing-method summary,MultiTtest-method |
| Class "MultiWilcoxonTest" | countSignificant,MultiWilcoxonTest-method cutoffSignificant,MultiWilcoxonTest-method hist,MultiWilcoxonTest-method MultiWilcoxonTest MultiWilcoxonTest-class plot,MultiWilcoxonTest,missing-method probDiff,MultiWilcoxonTest-method selectSignificant,MultiWilcoxonTest-method summary,MultiWilcoxonTest-method |
| Wilcoxon Rank-Sum Statistic | rankSum |
| Class "Sam" | countSignificant,Sam-method plot,Sam,missing-method Sam Sam-class selectSignificant,Sam-method summary,Sam-method |
| Class "SamSummary" | SamSummary SamSummary-class show,SamSummary-method |
| Generic Methods for Significance | countSignificant countSignificant,ANY-method countSignificant-method cutoffSignificant cutoffSignificant,ANY-method cutoffSignificant-method probDiff probDiff,ANY-method probDiff-method selectSignificant selectSignificant,ANY-method selectSignificant-method |
| Class "SingleGroup" | as.data.frame,SingleGroup-method plot,SingleGroup,missing-method print,SingleGroup-method show,SingleGroup-method SingleGroup SingleGroup-class summary,SingleGroup-method |
| Class "SmoothTtest" | as.data.frame,SmoothTtest-method plot,SmoothTtest,missing-method SmoothTtest SmoothTtest-class summary,SmoothTtest-method |
| Classes "TNoM" and "fullTNoM" | countSignificant,TNoM-method fullTNoM-class hist,fullTNoM-method plot,fullTNoM,missing-method selectSignificant,TNoM-method summary,TNoM-method TNoM TNoM-class update,TNoM-method |
| Class "TNoMSummary" | show,TNoMSummary-method TNoMSummary TNoMSummary-class |
| Class "TwoGroupStats" | as.data.frame,TwoGroupStats-method plot,TwoGroupStats,missing-method print,TwoGroupStats-method show,TwoGroupStats-method summary,TwoGroupStats-method TwoGroupStats TwoGroupStats-class |
| Classes for Variant T-tests | MultiTtestPaired MultiTtestPaired-class MultiTtestUnequal MultiTtestUnequal-class summary,MultiTtestPaired-method summary,MultiTtestUnequal-method |