Package: MBQN 2.19.0
Eva Brombacher
MBQN: Mean/Median-balanced quantile normalization
Modified quantile normalization for omics or other matrix-like data distorted in location and scale.
Authors:
MBQN_2.19.0.tar.gz
MBQN_2.19.0.zip(r-4.5)MBQN_2.19.0.zip(r-4.4)MBQN_2.19.0.zip(r-4.3)
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MBQN_2.19.0.tar.gz(r-4.5-noble)MBQN_2.19.0.tar.gz(r-4.4-noble)
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MBQN.pdf |MBQN.html✨
MBQN/json (API)
NEWS
| # Install 'MBQN' in R: |
| install.packages('MBQN', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/arianeschad/mbqn/issues
On BioConductor:MBQN-2.19.0(bioc 3.21)MBQN-2.18.0(bioc 3.20)
normalizationpreprocessingproteomicssoftware
Last updated 3 months agofrom:a95ce363bb. Checks:1 OK, 7 NOTE. Indexed: yes.
| Target | Result | Latest binary |
|---|---|---|
| Doc / Vignettes | OK | Jan 29 2025 |
| R-4.5-win | NOTE | Jan 29 2025 |
| R-4.5-mac | NOTE | Jan 29 2025 |
| R-4.5-linux | NOTE | Jan 29 2025 |
| R-4.4-win | NOTE | Jan 29 2025 |
| R-4.4-mac | NOTE | Jan 29 2025 |
| R-4.3-win | NOTE | Jan 29 2025 |
| R-4.3-mac | NOTE | Jan 29 2025 |
Exports:getKminmaxgetPvaluembqnmbqnBoxplotmbqnGetIntersectmbqnGetNRIfeaturesmbqnGetThresholdmbqnNRImbqnPlotAllmbqnPlotRImbqnSimuDatambqnSimuDistortiononeSidedTesttruncateDecimals
Dependencies:abindaskpassbase64encBiobaseBiocFileCacheBiocGenericsbitbit64bitopsblobbslibcachemclassclicolorspacecpp11crayoncurlDBIdbplyrDelayedArraydigestdplyre1071evaluatefansifarverfastmapfilelockfontawesomefsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gldgluegtablehighrhtmltoolshttrIRangesisobandjquerylibjsonliteknitrlabelinglatticelifecyclelimmalmommagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellmvtnormnlmeopensslPairedDatapillarpkgconfigplogrpreprocessCoreproxypurrrR6rappdirsRColorBrewerRCurlrlangrmarkdownRSQLiteS4ArraysS4VectorssassscalesSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttinytexUCSC.utilsutf8vctrsviridisLitewithrxfunxml2XVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Missing value pattern dataset | example_NApattern |
| Get the k largest/smallest elements | getKminmax |
| Calculates Pitman-Morgan variance test on two matrices | getPvalue |
| Mean/Median-balanced quantile normalization | mbqn |
| Combined box plot and line plot | mbqnBoxplot |
| Helper function for mbqnGetThreshold | mbqnGetIntersect |
| Identify rank invariant (RI) and nearly rank invariant (NRI) features | mbqnGetNRIfeatures |
| Calculates the rank invariance threshold from which on MBQN should be used instead of 'classical' QN | mbqnGetThreshold |
| Selective mean/median-balanced quantile normalization | mbqnNRI |
| Plot RI/NRI feature frequencies and normalized/unnormalized features | mbqnPlotAll |
| Plot frequency of detected RI/NRI features | mbqnPlotRI |
| Generate a random/structured data matrix | mbqnSimuData |
| Perturbation of sample mean and scale | mbqnSimuDistortion |
| Recalulate p value from two-sided to one-sided | oneSidedTest |
| Truncate float to defined number of decimal values | truncateDecimals |
