Files in diegommcc/digitalDLSorteR_dev
Deconvolution of Bulk RNA-Seq Data Based on Deep Learning
.Rbuildignore
.github/workflows/check-bioc.yml
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/AllClasses.R
R/AllGenerics.R
R/digitalDLSorteR.R
R/dnnModel.R
R/evalMetrics.R
R/interGradientsDL.R
R/loadData.R
R/simBulk.R
R/simSingleCell.R
R/utils.R
README.md
_pkgdown.yml
cran-comments.md
inst/CITATION
man/DigitalDLSorter-class.Rd
man/DigitalDLSorterDNN-class.Rd
man/ProbMatrixCellTypes-class.Rd
man/ZinbParametersModel-class.Rd
man/barErrorPlot.Rd
man/barPlotCellTypes.Rd
man/blandAltmanLehPlot.Rd
man/bulk.simul.Rd
man/calculateEvalMetrics.Rd
man/cell.names.Rd
man/cell.types.Rd
man/corrExpPredPlot.Rd
man/createDDLSobject.Rd
man/deconv.data.Rd
man/deconv.results.Rd
man/deconvDDLSObj.Rd
man/deconvDDLSPretrained.Rd
man/digitalDLSorteR.Rd
man/distErrorPlot.Rd
man/estimateZinbwaveParams.Rd
man/features.Rd
man/figures/logo.png
man/figures/summary.png
man/figures/workflow_readme.png
man/generateBulkCellMatrix.Rd
man/getProbMatrix.Rd
man/installTFpython.Rd
man/interGradientsDL.Rd
man/listToDDLS.Rd
man/listToDDLSDNN.Rd
man/loadDeconvData.Rd
man/loadTrainedModelFromH5.Rd
man/method.Rd
man/model.Rd
man/plotHeatmapGradsAgg.Rd
man/plotTrainingHistory.Rd
man/plots.Rd
man/preparingToSave.Rd
man/prob.cell.types.Rd
man/prob.matrix.Rd
man/project.Rd
man/saveRDS.Rd
man/saveTrainedModelAsH5.Rd
man/set.Rd
man/set.list.Rd
man/showProbPlot.Rd
man/simBulkProfiles.Rd
man/simSCProfiles.Rd
man/single.cell.real.Rd
man/single.cell.simul.Rd
man/test.deconv.metrics.Rd
man/test.metrics.Rd
man/test.pred.Rd
man/topGradientsCellType.Rd
man/trainDDLSModel.Rd
man/trained.model.Rd
man/training.history.Rd
man/zinb.params.Rd
man/zinbwave.model.Rd
pkgdown/extra.css
pkgdown/favicon/apple-touch-icon-120x120.png
pkgdown/favicon/apple-touch-icon-152x152.png
pkgdown/favicon/apple-touch-icon-180x180.png
pkgdown/favicon/apple-touch-icon-60x60.png
pkgdown/favicon/apple-touch-icon-76x76.png
pkgdown/favicon/apple-touch-icon.png
pkgdown/favicon/favicon-16x16.png
pkgdown/favicon/favicon-32x32.png
pkgdown/favicon/favicon.ico
tests/testdata/cellsMetadata.bad.tsv.gz
tests/testdata/cellsMetadata.tsv
tests/testdata/cellsMetadata.tsv.gz
tests/testdata/counts.bad.tsv.gz
tests/testdata/counts.tsv
tests/testdata/counts.tsv.gz
tests/testdata/genesMetadata.bad.tsv.gz
tests/testdata/genesMetadata.tsv
tests/testdata/genesMetadata.tsv.gz
tests/testdata/sparse_data/barcodes.tsv
tests/testdata/sparse_data/genes.tsv
tests/testdata/sparse_data/matrix.mtx
tests/testthat.R
tests/testthat/test_dnnModel.R
tests/testthat/test_evalMetrics.R
tests/testthat/test_loadData.R
tests/testthat/test_simBulk.R
tests/testthat/test_simSingleCell.R
tests/testthat/test_utils.R
vignettes/barPlotResults20_realModelWorkflow-1.png
vignettes/barPlotResults_realModelWorkflow-1.png
vignettes/boxplotResults_2_realModelWorkflow-1.png
vignettes/boxplotResults_realModelWorkflow-1.png
vignettes/corr1_realModelWorkflow-1.png
vignettes/hdf5Backend.Rmd
vignettes/heatmapGradients_realModelWorkflow-1.png
vignettes/kerasIssues.Rmd
vignettes/knitr_rendering.R
vignettes/pretrainedModels-hq.Rmd
vignettes/pretrainedModels.Rmd
vignettes/pretrainedModels.Rmd.orig
vignettes/realModelWorkflow-hq.Rmd
vignettes/realModelWorkflow.Rmd
vignettes/realModelWorkflow.Rmd.orig
vignettes/references.bib
vignettes/resultsDeconvTCGASimpl_pretrainedModels-1.png
vignettes/resultsDeconvTCGA_pretrainedModels-1.png
vignettes/resultsDeconvTCGA_pretrainedModels_2-1.png
vignettes/workflow_building_models.png
vignettes/workflow_pretrained_models.png
