Package: Spaniel 1.27.0

Rachel Queen

Spaniel: Spatial Transcriptomics Analysis

Spaniel includes a series of tools to aid the quality control and analysis of Spatial Transcriptomics data. Spaniel can import data from either the original Spatial Transcriptomics system or 10X Visium technology. The package contains functions to create a SingleCellExperiment Seurat object and provides a method of loading a histologial image into R. The spanielPlot function allows visualisation of metrics contained within the S4 object overlaid onto the image of the tissue.

Authors:Rachel Queen [aut, cre]

Spaniel_1.27.0.tar.gz
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Spaniel_1.27.0.tgz(r-4.6-any)Spaniel_1.27.0.tgz(r-4.5-any)
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Spaniel_1.27.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
Spaniel/json (API)
NEWS

# Install 'Spaniel' in R:
install.packages('Spaniel', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:Spaniel-1.27.0(bioc 3.24)Spaniel-1.26.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

singlecellrnaseqqualitycontrolpreprocessingnormalizationvisualizationtranscriptomicsgeneexpressionsequencingsoftwaredataimportdatarepresentationinfrastructurecoverageclustering

4.54 score 35 scripts 388 downloads 10 exports 202 dependencies

Last updated from:c4e09da6d7. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE252
linux-devel-x86_64NOTE482
source / vignettesOK468
linux-release-x86_64NOTE418
macos-release-arm64NOTE215
macos-oldrel-arm64NOTE299
windows-develNOTE623
windows-releaseNOTE338
windows-oldrelNOTE741
wasm-releaseOK184

Exports:addCoordinatescreateSCEcreateSeuratcreateVisiumSCEmarkClusterColparseImageremoveSpotsrunShinySpanielselectSpotsspanielPlot

Dependencies:abindaskpassassortheadbase64encbeachmatbeeswarmBHBiobaseBiocGenericsbiocmakeBiocNeighborsBiocParallelBiocSingularbitopsblusterbslibcachemCairocaToolscliclustercodetoolscommonmarkcowplotcpp11crosstalkcurldata.tableDelayedArrayDelayedMatrixStatsdeldirdigestdir.expirydotCall64dplyrdqrngDropletUtilsedgeRevaluatefarverfastDummiesfastmapfilelockfitdistrplusFNNfontawesomeformatRfsfutile.loggerfutile.optionsfuturefuture.applygenericsGenomicRangesggbeeswarmggplot2ggrastrggrepelggridgesglobalsgluegoftestgplotsgridExtragtablegtoolsh5mreadHDF5ArrayherehighrhtmltoolshtmlwidgetshttpuvhttricaigraphIRangesirlbaisobandjpegjquerylibjsonliteKernSmoothknitrlabelinglambda.rlaterlatticelazyevallifecyclelimmalistenvlmtestlocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemetapodmimeminiUInlmeopensslotelparallellypatchworkpbapplypheatmappillarpkgconfigplotlyplyrpngpolyclipprogressrpromisespurrrR.methodsS3R.ooR.utilsR6raggRANNrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppMLRcppProgressRcppTOMLreshape2reticulaterhdf5rhdf5filtersRhdf5librlangrmarkdownROCRrprojrootRSpectrarsvdRtsneS4ArraysS4VectorsS7sassScaledMatrixscalesscaterscattermorescransctransformscuttleSeqinfoSeuratSeuratObjectshinySingleCellExperimentsitmosnowsourcetoolsspspamSparseArraysparseMatrixStatsspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstatmodstringistringrSummarizedExperimentsurvivalsyssystemfontstensortextshapingtibbletidyrtidyselecttinytexutf8uwotvctrsviporviridisviridisLitewithrxfunxtableXVectoryamlzoo

Spaniel 10X Visium

Rachel Queen

Rendered fromspaniel-vignette-tenX-import.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2021-05-13
Started: 2021-05-11