Package: spoon 1.3.2
spoon: Address the Mean-variance Relationship in Spatial Transcriptomics Data
This package addresses the mean-variance relationship in spatially resolved transcriptomics data. Precision weights are generated for individual observations using Empirical Bayes techniques. These weights are used to rescale the data and covariates, which are then used as input in spatially variable gene detection tools.
Authors:
spoon_1.3.2.tar.gz
spoon_1.3.2.zip(r-4.5)spoon_1.3.2.zip(r-4.4)
spoon_1.3.2.tgz(r-4.5-any)spoon_1.3.2.tgz(r-4.4-any)
spoon_1.3.2.tar.gz(r-4.5-noble)spoon_1.3.2.tar.gz(r-4.4-noble)
spoon_1.3.2.tgz(r-4.4-emscripten)
spoon.pdf |spoon.html✨
spoon/json (API)
NEWS
# Install 'spoon' in R: |
install.packages('spoon', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/kinnaryshah/spoon/issues
On BioConductor:spoon-1.3.1(bioc 3.21)spoon-1.2.0(bioc 3.20)
spatialsinglecelltranscriptomicsgeneexpressionpreprocessing
Last updated 23 days agofrom:34388069ae. Checks:3 OK, 3 ERROR. Indexed: yes.
Target | Result | Latest binary |
---|---|---|
Doc / Vignettes | OK | Feb 12 2025 |
R-4.5-win | ERROR | Feb 12 2025 |
R-4.5-mac | ERROR | Feb 12 2025 |
R-4.5-linux | ERROR | Feb 12 2025 |
R-4.4-win | OK | Feb 12 2025 |
R-4.4-mac | OK | Feb 12 2025 |
Exports:generate_weightsweighted_nnSVG
Dependencies:abindaskpassassortheadbeachmatBHBiobaseBiocFileCacheBiocGenericsBiocParallelbitbit64blobBRISCcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydplyrfansifastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehttrIRangesjsonlitelambda.rlatticelifecyclemagickmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimennSVGopensslpbapplypillarpkgconfigplogrpurrrR6RANNRcppRcppArmadillordistrjsonrlangRSQLiteS4ArraysS4VectorsscuttleSingleCellExperimentsnowSparseArraySpatialExperimentstringistringrSummarizedExperimentsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXVector
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Generate weights | generate_weights |
Weighted nnSVG | weighted_nnSVG |