Package: tpSVG 1.9.0

tpSVG: Thin plate models to detect spatially variable genes
The goal of `tpSVG` is to detect and visualize spatial variation in the gene expression for spatially resolved transcriptomics data analysis. Specifically, `tpSVG` introduces a family of count-based models, with generalizable parametric assumptions such as Poisson distribution or negative binomial distribution. In addition, comparing to currently available count-based model for spatially resolved data analysis, the `tpSVG` models improves computational time, and hence greatly improves the applicability of count-based models in SRT data analysis.
Authors:
tpSVG_1.9.0.tar.gz
tpSVG_1.9.0.zip(r-4.7)tpSVG_1.9.0.zip(r-4.6)tpSVG_1.9.0.zip(r-4.5)
tpSVG_1.9.0.tgz(r-4.6-any)tpSVG_1.9.0.tgz(r-4.5-any)
tpSVG_1.9.0.tar.gz(r-4.7-any)tpSVG_1.9.0.tar.gz(r-4.6-any)
tpSVG_1.9.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
tpSVG/json (API)
NEWS
| # Install 'tpSVG' in R: |
| install.packages('tpSVG', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/boyiguo1/tpsvg/issues
On BioConductor:tpSVG-1.9.0(bioc 3.24)tpSVG-1.8.0(bioc 3.23)
spatialtranscriptomicsgeneexpressionsoftwarestatisticalmethoddimensionreductionregressionpreprocessingspatially-resolvespatially-variable-genes
Last updated from:7145726ee2. Checks:1 NOTE, 7 WARNING, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 214 | ||
| linux-devel-x86_64 | WARNING | 429 | ||
| source / vignettes | OK | 334 | ||
| linux-release-x86_64 | WARNING | 382 | ||
| macos-release-arm64 | WARNING | 283 | ||
| macos-oldrel-arm64 | WARNING | 236 | ||
| windows-devel | WARNING | 370 | ||
| windows-release | WARNING | 436 | ||
| windows-oldrel | WARNING | 386 | ||
| wasm-release | OK | 202 |
Exports:tpSVG
Dependencies:abindaskpassBHBiobaseBiocFileCacheBiocGenericsBiocParallelbitbit64blobcachemclicodetoolscpp11curlDBIdbplyrDelayedArraydplyrfastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomicRangesgluehttr2IRangeslambda.rlatticelifecyclemagickmagrittrMatrixMatrixGenericsmatrixStatsmemoisemgcvnlmeopensslpillarpkgconfigpurrrR6rappdirsRcpprjsonrlangRSQLiteS4ArraysS4VectorsSeqinfoSingleCellExperimentsnowSparseArraySpatialExperimentstringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrswithrXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Thin Plate Spline Model to Detect Spatially Variable Genes | tpSVG |
