Files in CostaLab/scMEGA
Single-cell Multiomic Enhancer-based Gene Regulatory Network Inference
.Rbuildignore
.github/.gitignore
.github/workflows/render-rmarkdown.yaml
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
NEWS.md
R/RcppExports.R
R/dimension_reduction.R
R/grn.R
R/pair_cells.R
R/peak_to_gene.R
R/select_tf_gene.R
R/trajectory_analysis.R
R/utils.R
R/visualization.R
README.md
_pkgdown.yml
data/geneAnnoHg19.rda
data/geneAnnoHg38.rda
data/geneAnnoMm10.rda
data/geneAnnoMm9.rda
docs/404.html
docs/LICENSE-text.html
docs/LICENSE.html
docs/articles/cardiomyocyte-GRN.html
docs/articles/index.html
docs/articles/install.html
docs/articles/myofibroblast-GRN.html
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-1-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-10-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-11-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-13-1.png
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docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-3-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-4-1.png
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docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-7-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-8-1.png
docs/articles/myofibroblast-GRN_files/figure-html/unnamed-chunk-9-1.png
docs/articles/myofibroblast-GRN_files/figure-html/viz_network-1.png
docs/articles/pbmc_10x_multiome.html
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-11-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-13-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-17-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-19-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-20-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-21-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-23-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-25-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-26-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-4-1.png
docs/articles/pbmc_10x_multiome_files/figure-html/unnamed-chunk-8-1.png
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/news/index.html
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/AddTargetAssay.html
docs/reference/AddTrajectory.html
docs/reference/CellPropPlot-1.png
docs/reference/CellPropPlot.html
docs/reference/CoembedData.html
docs/reference/CompareCellProp.html
docs/reference/CorrelationHeatmap.html
docs/reference/CorrelationPlot.html
docs/reference/CreatePairedObject.html
docs/reference/GRNHeatmap.html
docs/reference/GRNPlot.html
docs/reference/GRNSpatialPlot.html
docs/reference/GetCorrelation.html
docs/reference/GetGRN.html
docs/reference/GetPairList.html
docs/reference/GetTFGeneCorrelation.html
docs/reference/GetTrajectory.html
docs/reference/NetCentPlot.html
docs/reference/PairCells.html
docs/reference/PeakToGene.html
docs/reference/PseudotimePlot.html
docs/reference/Rplot001.png
docs/reference/RunDiffusionMap.html
docs/reference/SelectGenes.html
docs/reference/SelectTFs.html
docs/reference/TopEmbGRN.html
docs/reference/TrajectoryHeatmap.html
docs/reference/TrajectoryPlot.html
docs/reference/figures/schematic.png
docs/reference/index.html
docs/sitemap.xml
man/AddTargetAssay.Rd
man/AddTrajectory.Rd
man/CellPropPlot.Rd
man/CoembedData.Rd
man/CompareCellProp.Rd
man/CorrelationHeatmap.Rd
man/CorrelationPlot.Rd
man/CreatePairedObject.Rd
man/GRNHeatmap.Rd
man/GRNPlot.Rd
man/GRNSpatialPlot.Rd
man/GetCorrelation.Rd
man/GetGRN.Rd
man/GetPairList.Rd
man/GetTFGeneCorrelation.Rd
man/GetTrajectory.Rd
man/NetCentPlot.Rd
man/PairCells.Rd
man/PeakToGene.Rd
man/PseudotimePlot.Rd
man/RunDiffusionMap.Rd
man/SelectGenes.Rd
man/SelectTFs.Rd
man/TopEmbGRN.Rd
man/TrajectoryHeatmap.Rd
man/TrajectoryPlot.Rd
man/figures/.DS_Store
man/figures/schematic.png
pkgdown/index.md
run.sh
scMEGA.Rproj
src/.gitignore
src/Correlation.cpp
src/RcppExports.cpp
vignettes/.gitignore
vignettes/cardiomyocyte-GRN.Rmd
vignettes/install.Rmd
vignettes/myofibroblast-GRN.Rmd
vignettes/pbmc_10x_multiome.Rmd
