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.R_libs/README
.R_libs/clean.sh
.Renviron
.Rprofile
.gitignore
.pyenv/README
COPYRIGHT.txt
LICENSE.txt
README.md
data/README.md
data/single_cell/Baron2016/baron-mouse.rds
data/single_cell/Freytag2018/goldstandard/Sce_CellRanger.RData
data/single_cell/Freytag2018/silverstandard/Sce_Dataset1.RData
data/single_cell/Freytag2018/silverstandard/Sce_Dataset2.RData
data/single_cell/Freytag2018/silverstandard/Sce_Dataset2b.rds
data/single_cell/Freytag2018/silverstandard/Sce_Dataset3.RData
data/single_cell/Freytag2018/silverstandard/Sce_Dataset3b.rds
data/single_cell/Freytag2018/silverstandard/Sce_Dataset4.rds
data/single_cell/Freytag2018/silverstandard/Sce_Dataset5.rds
data/single_cell/LlorensBobadilla2015/LlorensBobadilla2015_cells_and_types.csv
data/single_cell/LlorensBobadilla2015/LlorensBobadilla2015_genes_counts.RData
experiment/simulated_data/gene_selection.R
experiment/simulated_data/running_time.R
experiment/simulated_data/src_experiment.R
experiment/simulated_data/stability_clustering.R
experiment/simulated_data/stability_selection.R
experiment/simulated_data/tsne_effect_perplexity.R
experiment/simulated_data/visu_effect_dropout.R
experiment/simulated_data/visu_effect_noisy_genes.R
experiment/single_cell_data/analysis_data_baron.R
experiment/single_cell_data/analysis_data_freytag.R
experiment/single_cell_data/analysis_data_freytag_silver.R
experiment/single_cell_data/analysis_data_llorens.R
experiment/single_cell_data/check_data_baron.R
experiment/single_cell_data/check_data_freytag_paper.R
experiment/single_cell_data/check_data_golumbeanu.R
experiment/single_cell_data/check_data_llorens.R
experiment/single_cell_data/src_experiment.R
pCMF_experiments.Rproj
result/README.md
set_env.sh
set_pkg.R
set_python_zifa.sh
set_scRNAtools.R
src/R/data_simulation.R
src/R/data_tool.R
src/R/exp_var.R
src/R/experiment_result.R
src/R/kmeans_call.R
src/R/pca_call.R
src/R/single_cell_analysis.R
src/R/spca_call.R
src/R/transform.R
src/R/tsne_analysis.R
src/R/tsne_call.R
src/R/zifa_call.R
third_party_src/M3Drop_Vignette.R
third_party_src/SingleCellExperiment_Vignette.R
third_party_src/ZIFA/LICENSE.txt
third_party_src/ZIFA/README.md
third_party_src/ZIFA/ZIFA/ZIFA.py
third_party_src/ZIFA/ZIFA/__init__.py
third_party_src/ZIFA/ZIFA/block_ZIFA.py
third_party_src/ZIFA/example.py
third_party_src/ZIFA/read_in_real_data_example.py
third_party_src/ZIFA/setup.py
third_party_src/ZIFA/test_ZIFA.py
third_party_src/ZIFA/unitTests.py