Files in JEFworks/MERingue
Characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with non-uniform cellular densities

.Rbuildignore
.github/.gitignore
.github/workflows/check-standard.yaml
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/MERingue-package.R R/RcppExports.R R/app.R R/cluster.R R/correlationStatistics.R R/data.R R/external.R R/main.R R/nearestNeighbor.R R/parameterChoice.R R/plot.R R/process.R R/tsm.R README.md
data/BCL.rda
data/drosophila.rda
data/mOB.rda
data/mPOA.rda
data/mouseCoronal.rda
data/purkinje.rda
data/receptorLigandInfo.rda
docs/BCL_analysis.md
docs/BCL_analysis_files/figure-markdown_strict/bcl-clean-1.png
docs/BCL_analysis_files/figure-markdown_strict/bcl-inconsistent-1.png
docs/BCL_analysis_files/figure-markdown_strict/bcl-indsection-1.png
docs/BCL_analysis_files/figure-markdown_strict/bcl-init-1.png
docs/BCL_analysis_files/figure-markdown_strict/bcl-sample-1.png
docs/BCL_analysis_files/figure-markdown_strict/bcl-sample-2.png
docs/README.md
docs/_config.yml
docs/_layouts/default.html
docs/assets/css/style.scss
docs/assets/fonts/Noto-Sans-700/Noto-Sans-700.eot
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docs/assets/img/logo.png
docs/assets/img/meringue_overview.png
docs/assets/img/meringue_sample.png
docs/assets/js/scale.fix.js
docs/drosophila_3D_analysis.md
docs/drosophila_3D_analysis_files/figure-markdown_strict/drosophila-data-1.png
docs/drosophila_3D_analysis_files/figure-markdown_strict/drosophila-pattern-1.png
docs/drosophila_3D_analysis_files/figure-markdown_strict/drosophila-scc-1.png
docs/drosophila_3D_analysis_files/figure-markdown_strict/drosophila-sub-1.png
docs/favicon.ico
docs/img/meringue_logo.png
docs/index.md docs/mOB_analysis.md
docs/mOB_analysis_files/figure-markdown_strict/mob-comparison-1.png
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docs/mOB_analysis_files/figure-markdown_strict/mob-spatially-unaware-1.png
docs/mOB_analysis_files/figure-markdown_strict/spatial-sub-network-1.png
docs/mOB_analysis_files/figure-markdown_strict/spatial-weights-1.png
docs/simulation.md
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docs/spatial_clustering.md
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inst/CITATION
man/BCL.Rd man/MERINGUE.Rd man/cleanCounts.Rd man/drosophila.Rd man/filterSpatialPatterns.Rd man/getBnn.Rd man/getClusters.Rd man/getCrossLayerNeighbors.Rd man/getDifferentialGenes.Rd man/getInterCellTypeWeight.Rd man/getKnn.Rd man/getMnn.Rd man/getOverdispersedGenes.Rd man/getPv.Rd man/getSpatialNeighbors.Rd man/getSpatialPatterns.Rd man/getSpatiallyInformedClusters.Rd man/groupSigSpatialPatterns.Rd man/interCellTypeSpatialCrossCor.Rd man/interpolate.Rd man/lisaTest.Rd man/mOB.Rd man/mPOA.Rd man/makeApp.Rd man/moranPermutationTest.Rd man/moranTest.Rd man/moranTest_DEPRECATED.Rd man/mouseCoronal.Rd man/normalizeCounts.Rd man/plotEmbedding.Rd man/plotInterCellTypeSpatialCrossCor.Rd man/plotNetwork.Rd man/plotNetwork3D.Rd man/purkinje.Rd man/receptorLigandInfo.Rd man/rotatePos.Rd man/signedLisa.Rd man/signedLisaPlot.Rd man/spatialCrossCor.Rd man/spatialCrossCorMatrix.Rd man/spatialCrossCorTest.Rd man/spatialCrossCorTorTest.Rd man/winsorize.Rd
src/MERingue.so
src/Makevars.win
src/RcppExports.cpp
src/RcppExports.o
src/functions.cpp
src/functions.o
tests/testthat.R tests/testthat/Rplots.pdf tests/testthat/testCor.R tests/testthat/testCpp.R tests/testthat/testExt.R
tools/img/meringue_logo.svg
vignettes/BCL_analysis.Rmd vignettes/drosophila_3D_analysis.Rmd vignettes/mOB_analysis.Rmd vignettes/mouseCoronal.Rmd vignettes/simulation.Rmd vignettes/spatial_clustering.Rmd
JEFworks/MERingue documentation built on June 11, 2022, 4:16 a.m.