Package: TDbasedUFE 1.13.0
Y-h. Taguchi
TDbasedUFE: Tensor Decomposition Based Unsupervised Feature Extraction
This is a comprehensive package to perform Tensor decomposition based unsupervised feature extraction. It can perform unsupervised feature extraction. It uses tensor decomposition. It is applicable to gene expression, DNA methylation, and histone modification etc. It can perform multiomics analysis. It is also potentially applicable to single cell omics data sets.
Authors:
TDbasedUFE_1.13.0.tar.gz
TDbasedUFE_1.13.0.zip(r-4.7)TDbasedUFE_1.13.0.zip(r-4.6)TDbasedUFE_1.13.0.zip(r-4.5)
TDbasedUFE_1.13.0.tgz(r-4.6-any)TDbasedUFE_1.13.0.tgz(r-4.5-any)
TDbasedUFE_1.13.0.tar.gz(r-4.7-any)TDbasedUFE_1.13.0.tar.gz(r-4.6-any)
TDbasedUFE_1.13.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
TDbasedUFE/json (API)
NEWS
| # Install 'TDbasedUFE' in R: |
| install.packages('TDbasedUFE', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/tagtag/tdbasedufe/issues
On BioConductor:TDbasedUFE-1.13.0(bioc 3.24)TDbasedUFE-1.12.0(bioc 3.23)
geneexpressionfeatureextractionmethylationarraysinglecellbioinformaticsdna-methylationgene-expression-profileshistone-modificationsmultiomicstensor-decomposition
Last updated from:73bda05b76. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 221 | ||
| linux-devel-x86_64 | OK | 246 | ||
| source / vignettes | OK | 208 | ||
| linux-release-x86_64 | OK | 277 | ||
| macos-release-arm64 | OK | 188 | ||
| macos-oldrel-arm64 | OK | 195 | ||
| windows-devel | OK | 171 | ||
| windows-release | OK | 155 | ||
| windows-oldrel | OK | 158 | ||
| wasm-release | OK | 164 |
Exports:computeHosvdcomputeHosvdSqureconvertSquarePrepareSummarizedExperimentTensorPrepareSummarizedExperimentTensorSquareselectFeatureselectFeatureSquareselectSingularValueVectorLargeselectSingularValueVectorSmalltableFeaturestableFeaturesSquare
Dependencies:base64encBiocGenericsbitbit64bslibcachemclicliprcommonmarkcpp11crayondigestfastmapfontawesomefsgenericsGenomicRangesgluehmshtmltoolshttpuvIRangesjquerylibjsonlitelaterlifecyclemagrittrmemoisemimeMOFAdataotelpillarpkgconfigprettyunitsprogresspromisesR6rappdirsRcppreadrrlangrTensorS4VectorssassSeqinfoshinysourcetoolstibbletidyselecttximporttximportDatatzdbutf8vctrsvroomwithrxtable
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Title Compute higher order singular value decomposition | computeHosvd |
| Title Compute higher order singular value decomposition from the tensor generated from squared matrix | computeHosvdSqure |
| Generate squared tensor from multiomics data | convertSquare |
| Title Generate feature values formatted as a tensor format | PrepareSummarizedExperimentTensor |
| Title Generate feature values formatted as a tensor format from Squared matrix | PrepareSummarizedExperimentTensorSquare |
| Title Select features | selectFeature |
| Title Select features (for tensor generated from squared matrix) | selectFeatureSquare |
| Title Select singular value vectors from HOSVD (boxplot version) | selectSingularValueVectorLarge |
| Title Select singular value vectors from HOSVD | selectSingularValueVectorSmall |
| Title Show selected features as Table | tableFeatures |
| Title Show selected features as Table (for Squared one) | tableFeaturesSquare |
