Package: tpSVG 1.3.0

Boyi Guo

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:Boyi Guo [aut, cre], Lukas M. Weber [ctb], Stephanie C. Hicks [aut]

tpSVG_1.3.0.tar.gz
tpSVG_1.3.0.zip(r-4.5)tpSVG_1.3.0.zip(r-4.4)
tpSVG_1.3.0.tgz(r-4.5-any)tpSVG_1.3.0.tgz(r-4.4-any)
tpSVG_1.3.0.tar.gz(r-4.5-noble)tpSVG_1.3.0.tar.gz(r-4.4-noble)
tpSVG_1.3.0.tgz(r-4.4-emscripten)
tpSVG.pdf |tpSVG.html
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-1.3.0(bioc 3.21)tpSVG-1.2.0(bioc 3.20)

spatialtranscriptomicsgeneexpressionsoftwarestatisticalmethoddimensionreductionregressionpreprocessingspatially-resolvespatially-variable-genes

4.48 score 2 stars 2 scripts 129 downloads 1 exports 74 dependencies

Last updated 4 months agofrom:3b8b10dd49. Checks:6 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 17 2025
R-4.5-winOKFeb 17 2025
R-4.5-macOKFeb 17 2025
R-4.5-linuxOKFeb 17 2025
R-4.4-winOKFeb 17 2025
R-4.4-macOKFeb 17 2025

Exports:tpSVG

Dependencies:abindaskpassBHBiobaseBiocFileCacheBiocGenericsBiocParallelbitbit64blobcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydplyrfansifastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehttrIRangesjsonlitelambda.rlatticelifecyclemagickmagrittrMatrixMatrixGenericsmatrixStatsmemoisemgcvmimenlmeopensslpillarpkgconfigplogrpurrrR6RcpprjsonrlangRSQLiteS4ArraysS4VectorsSingleCellExperimentsnowSparseArraySpatialExperimentstringistringrSummarizedExperimentsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXVector

Introduction to tpSVG

Rendered fromintro_to_tpSVG.Rmdusingknitr::rmarkdownon Feb 17 2025.

Last update: 2024-02-28
Started: 2023-04-15