Files in data2intelligence/SpaCE
Spatial Cellular Estimator for Tumors
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/.DS_Store
R/deconvolution.R
R/extensions.R
R/interaction.R
R/utilities.R
R/visualization.R
README.Rmd
README.md
SpaCET.Rproj
_pkgdown.yml
docs/.DS_Store
docs/404.html
docs/LICENSE-text.html
docs/articles/GeneSetScore.html
docs/articles/img/CAF-M2.png
docs/articles/img/CCC.png
docs/articles/img/GS1.png
docs/articles/img/GS2.png
docs/articles/img/GS3.png
docs/articles/img/LRNetworkScore.png
docs/articles/img/PDAC_CCC.png
docs/articles/img/PDAC_expr.png
docs/articles/img/PDAC_prop.png
docs/articles/img/QC.png
docs/articles/img/cancerCellState.png
docs/articles/img/cancerDictionary.png
docs/articles/img/cancerInterface1.png
docs/articles/img/cancerInterface2.png
docs/articles/img/cancerInterface3.png
docs/articles/img/visualizeDeconvolution.png
docs/articles/img/visualizeDeconvolution2.png
docs/articles/img/visualizeDeconvolution3.png
docs/articles/index.html
docs/articles/oldST_PDAC.html
docs/articles/visium_BC.html
docs/authors.html
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js
docs/deps/bootstrap-5.1.0/bootstrap.bundle.min.js.map
docs/deps/bootstrap-5.1.0/bootstrap.min.css
docs/deps/data-deps.txt
docs/deps/jquery-3.6.0/jquery-3.6.0.js
docs/deps/jquery-3.6.0/jquery-3.6.0.min.js
docs/deps/jquery-3.6.0/jquery-3.6.0.min.map
docs/index.html
docs/link.svg
docs/news/index.html
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/SpaCET-class.html
docs/reference/SpaCET.CCI.LRNetworkScore.html
docs/reference/SpaCET.CCI.cellTypePair.html
docs/reference/SpaCET.CCI.colocalization.html
docs/reference/SpaCET.GeneSetScore.html
docs/reference/SpaCET.combine.interface.html
docs/reference/SpaCET.deconvolution.html
docs/reference/SpaCET.deconvolution.malignant.html
docs/reference/SpaCET.deconvolution.matched.scRNAseq.html
docs/reference/SpaCET.distance.to.interface.html
docs/reference/SpaCET.identify.interface.html
docs/reference/SpaCET.quality.control.html
docs/reference/SpaCET.visualize.cellTypePair.html
docs/reference/SpaCET.visualize.colocalization.html
docs/reference/SpaCET.visualize.spatialFeature.html
docs/reference/addTo.Seurat.html
docs/reference/convert.Seurat.html
docs/reference/create.SpaCET.object.10X.html
docs/reference/create.SpaCET.object.html
docs/reference/figures/sticker.png
docs/reference/figures/workflow.png
docs/reference/index.html
docs/reference/read.gmt.html
docs/reference/write.gmt.html
docs/search.json
docs/sitemap.xml
inst/.DS_Store
inst/extdata/.DS_Store
inst/extdata/GeneSets/CancerCellState.gmt
inst/extdata/GeneSets/Hallmark.gmt
inst/extdata/GeneSets/TLS.gmt
inst/extdata/LR.txt
inst/extdata/Visium_BC/.DS_Store
inst/extdata/Visium_BC/filtered_feature_bc_matrix.h5
inst/extdata/Visium_BC/filtered_feature_bc_matrix/.DS_Store
inst/extdata/Visium_BC/filtered_feature_bc_matrix/barcodes.tsv.gz
inst/extdata/Visium_BC/filtered_feature_bc_matrix/features.tsv
inst/extdata/Visium_BC/filtered_feature_bc_matrix/features.tsv.gz
inst/extdata/Visium_BC/filtered_feature_bc_matrix/matrix.mtx.gz
inst/extdata/Visium_BC/spatial/scalefactors_json.json
inst/extdata/Visium_BC/spatial/tissue_lowres_image.png
inst/extdata/Visium_BC/spatial/tissue_positions_list.csv
inst/extdata/cancerDictionary.rda
inst/extdata/combRef_0.5.rda
inst/extdata/oldST_PDAC/.DS_Store
inst/extdata/oldST_PDAC/sc_PDAC.rda
inst/extdata/oldST_PDAC/st_PDAC.rda
man/.DS_Store
man/SpaCET-class.Rd
man/SpaCET.CCI.LRNetworkScore.Rd
man/SpaCET.CCI.cellTypePair.Rd
man/SpaCET.CCI.colocalization.Rd
man/SpaCET.GeneSetScore.Rd
man/SpaCET.combine.interface.Rd
man/SpaCET.deconvolution.Rd
man/SpaCET.deconvolution.malignant.Rd
man/SpaCET.deconvolution.matched.scRNAseq.Rd
man/SpaCET.distance.to.interface.Rd
man/SpaCET.identify.interface.Rd
man/SpaCET.quality.control.Rd
man/SpaCET.visualize.cellTypePair.Rd
man/SpaCET.visualize.colocalization.Rd
man/SpaCET.visualize.spatialFeature.Rd
man/addTo.Seurat.Rd
man/convert.Seurat.Rd
man/create.SpaCET.object.10X.Rd
man/create.SpaCET.object.Rd
man/figures/.DS_Store
man/figures/sticker.png
man/figures/workflow.png
man/read.gmt.Rd
man/write.gmt.Rd
vignettes/.DS_Store
vignettes/GeneSetScore.Rmd
vignettes/img/.DS_Store
vignettes/img/CAF-M2.png
vignettes/img/CCC.png
vignettes/img/GS1.png
vignettes/img/GS2.png
vignettes/img/GS3.png
vignettes/img/LRNetworkScore.png
vignettes/img/PDAC_CCC.png
vignettes/img/PDAC_expr.png
vignettes/img/PDAC_prop.png
vignettes/img/QC.png
vignettes/img/cancerCellState.png
vignettes/img/cancerDictionary.png
vignettes/img/cancerInterface1.png
vignettes/img/cancerInterface2.png
vignettes/img/cancerInterface3.png
vignettes/img/visualizeDeconvolution.png
vignettes/img/visualizeDeconvolution2.png
vignettes/img/visualizeDeconvolution3.png
vignettes/oldST_PDAC.Rmd
vignettes/visium_BC.Rmd
