Package: COMPASS 1.45.0
Greg Finak
COMPASS: Combinatorial Polyfunctionality Analysis of Single Cells
COMPASS is a statistical framework that enables unbiased analysis of antigen-specific T-cell subsets. COMPASS uses a Bayesian hierarchical framework to model all observed cell-subsets and select the most likely to be antigen-specific while regularizing the small cell counts that often arise in multi-parameter space. The model provides a posterior probability of specificity for each cell subset and each sample, which can be used to profile a subject's immune response to external stimuli such as infection or vaccination.
Authors:
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COMPASS.pdf |COMPASS.html✨
COMPASS/json (API)
NEWS
| # Install 'COMPASS' in R: |
| install.packages('COMPASS', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/rglab/compass/issues
On BioConductor:COMPASS-1.43.0(bioc 3.20)COMPASS-1.42.0(bioc 3.19)
Last updated 23 days agofrom:2b16d61fda. Checks:ERROR: 3 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | FAIL | Oct 30 2024 |
| R-4.5-win-x86_64 | WARNING | Oct 30 2024 |
| R-4.5-linux-x86_64 | WARNING | Oct 30 2024 |
| R-4.4-win-x86_64 | WARNING | Oct 30 2024 |
| R-4.4-mac-x86_64 | WARNING | Oct 30 2024 |
| R-4.4-mac-aarch64 | ERROR | Oct 30 2024 |
| R-4.3-win-x86_64 | WARNING | Oct 30 2024 |
| R-4.3-mac-x86_64 | WARNING | Oct 30 2024 |
| R-4.3-mac-aarch64 | ERROR | Oct 30 2024 |
Exports:categoriesCellCountsCombinationsCOMPASSCOMPASSContainerCOMPASSContainerFromGatingSetCOMPASSDescriptionCOMPASSDescription<-COMPASSfitToCountsTableCOMPASSMCMCDiagnosisFunctionalityScoregetCountsGetThresholdedIntensitiesmarkersmetadatametadata<-pheatmapplot2plotCOMPASSResultStackPolyfunctionalityScorePosteriorPosteriorDiffPosteriorLogDiffPosteriorPsPosteriorPuResponsescoresselect_compass_popsshinyCOMPASSshinyCOMPASSDepsSimpleCOMPASSTotalCellCountstranslate_marker_namestranspose_listUniqueCombinations
Dependencies:abindbase64encBiocManagerBiocStylebookdownbslibcachemcliclueclustercodacodetoolscolorspacecpp11data.tabledigestdplyrevaluatefansifarverfastmapfontawesomeforeachfsgenericsgluehighrhtmltoolsiteratorsjquerylibjsonliteknitrlabelinglatticelifecyclemagrittrmemoisemimemunsellpdistpillarpkgconfigplyrpurrrR6rappdirsRColorBrewerRcppreshape2rlangrmarkdownsassscalesstringistringrtibbletidyrtidyselecttinytexutf8vctrsviridisLitewithrxfunyaml
