Files in HectorRDB/condimentsPaper
Package to accompany the condiments Paper
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
R/analyze_simu.R
R/data.R
R/generate_simu.R
R/import_KRAS.R
R/import_TCDD.R
R/import_TGFB.R
R/import_fibrosis.R
R/plots.R
R/sticker.R
R/test_simu.R
R/utils-pipe.R
README.md
_pkgdown.yml
data/complex.rda
data/complex_sce.rda
data/condRes_monocle.rda
data/fibrosis.rda
data/five_lins.rda
data/fivelin_sce.rda
data/fork.rda
data/fork_sce.rda
data/kras.rda
data/step1_fail.rda
data/tcdd.rda
data/tgfb.rda
data/tree.rda
data/tree_sce.rda
data/unstability.rda
docs/404.html
docs/apple-touch-icon-120x120.png
docs/apple-touch-icon-152x152.png
docs/apple-touch-icon-180x180.png
docs/apple-touch-icon-60x60.png
docs/apple-touch-icon-76x76.png
docs/apple-touch-icon.png
docs/articles/Examples.html
docs/articles/Examples_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/Examples_files/figure-html/unnamed-chunk-4-1.png
docs/articles/Examples_files/figure-html/unnamed-chunk-5-1.png
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docs/articles/Examples_files/figure-html/unnamed-chunk-8-1.png
docs/articles/Examples_files/figure-html/unnamed-chunk-9-1.png
docs/articles/Examples_files/header-attrs-2.7/header-attrs.js
docs/articles/Examples_files/header-attrs-2.9/header-attrs.js
docs/articles/Fibrosis.html
docs/articles/Fibrosis_files/figure-html/unnamed-chunk-11-1.png
docs/articles/Fibrosis_files/figure-html/unnamed-chunk-13-1.png
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docs/articles/Fibrosis_files/figure-html/unnamed-chunk-8-1.png
docs/articles/Fibrosis_files/figure-html/unnamed-chunk-9-1.png
docs/articles/Fibrosis_files/header-attrs-2.9/header-attrs.js
docs/articles/KRAS.html
docs/articles/KRAS_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/KRAS_files/figure-html/unnamed-chunk-10-1.png
docs/articles/KRAS_files/figure-html/unnamed-chunk-12-1.png
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docs/articles/KRAS_files/figure-html/unnamed-chunk-5-1.png
docs/articles/KRAS_files/figure-html/unnamed-chunk-9-1.png
docs/articles/KRAS_files/header-attrs-2.7/header-attrs.js
docs/articles/KRAS_files/header-attrs-2.9/header-attrs.js
docs/articles/Simulations.html
docs/articles/Simulations_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/Simulations_files/figure-html/unnamed-chunk-13-1.png
docs/articles/Simulations_files/figure-html/unnamed-chunk-14-1.png
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docs/articles/Simulations_files/header-attrs-2.7/header-attrs.js
docs/articles/Simulations_files/header-attrs-2.9/header-attrs.js
docs/articles/TCDD.html
docs/articles/TCDD_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/TCDD_files/figure-html/unnamed-chunk-13-1.png
docs/articles/TCDD_files/figure-html/unnamed-chunk-13-2.png
docs/articles/TCDD_files/figure-html/unnamed-chunk-13-3.png
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docs/articles/TCDD_files/figure-html/unnamed-chunk-5-1.png
docs/articles/TCDD_files/figure-html/unnamed-chunk-8-1.png
docs/articles/TCDD_files/figure-html/unnamed-chunk-9-1.png
docs/articles/TCDD_files/header-attrs-2.7/header-attrs.js
docs/articles/TCDD_files/header-attrs-2.9/header-attrs.js
docs/articles/TGFB.html
docs/articles/TGFB_files/accessible-code-block-0.0.1/empty-anchor.js
docs/articles/TGFB_files/figure-html/compute scores-1.png
docs/articles/TGFB_files/figure-html/monocle3-1.png
docs/articles/TGFB_files/figure-html/plotDensities monocle-1.png
docs/articles/TGFB_files/figure-html/plotDensities-1.png
docs/articles/TGFB_files/figure-html/plotSlingshot-1.png
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docs/articles/TGFB_files/figure-html/unnamed-chunk-4-1.png
docs/articles/TGFB_files/figure-html/unnamed-chunk-5-1.png
docs/articles/TGFB_files/header-attrs-2.7/header-attrs.js
docs/articles/TGFB_files/header-attrs-2.9/header-attrs.js
docs/articles/index.html
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/favicon-16x16.png
docs/favicon-32x32.png
docs/favicon.ico
docs/index.html
docs/link.svg
docs/logo.png
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/all_metrics.html
docs/reference/anayze_all.html
docs/reference/anayze_all_per_cond.html
docs/reference/anayze_multiple_conditions.html
docs/reference/clean_results.html
docs/reference/complex.html
docs/reference/complex_sce.html
docs/reference/condRes_monocle.html
docs/reference/create_5_lineages_simu.html
docs/reference/create_bifurcating_simu.html
docs/reference/create_bifurcating_three_conditions_simu.html
docs/reference/create_consecutive_bifurcating_simu.html
docs/reference/fibrosis.html
docs/reference/figures/logo.png
docs/reference/five_lins.html
docs/reference/fivelin_sce.html
docs/reference/fork.html
docs/reference/fork_sce.html
docs/reference/import_KRAS.html
docs/reference/import_TCDD.html
docs/reference/import_TGFB.html
docs/reference/import_fibrosis.html
docs/reference/index.html
docs/reference/kras.html
docs/reference/pipe.html
docs/reference/plot_backbone_modulenet_simplify.html
docs/reference/plot_example.html
docs/reference/plot_reduced_dim.html
docs/reference/plot_reduced_dim_together.html
docs/reference/step1_fail.html
docs/reference/tcdd.html
docs/reference/tgfb.html
docs/reference/tree.html
docs/reference/tree_sce.html
docs/reference/unstability.html
docs/sitemap.xml
inst/figures/Differential_Topology.pdf
inst/figures/ketchup.png
inst/figures/mustard.png
inst/figures/plot.png
man/all_metrics.Rd
man/anayze_all.Rd
man/anayze_all_per_cond.Rd
man/anayze_multiple_conditions.Rd
man/clean_results.Rd
man/complex.Rd
man/complex_sce.Rd
man/condRes_monocle.Rd
man/create_5_lineages_simu.Rd
man/create_bifurcating_simu.Rd
man/create_bifurcating_three_conditions_simu.Rd
man/create_consecutive_bifurcating_simu.Rd
man/fibrosis.Rd
man/figures/logo.png
man/five_lins.Rd
man/fivelin_sce.Rd
man/fork.Rd
man/fork_sce.Rd
man/import_KRAS.Rd
man/import_TCDD.Rd
man/import_TGFB.Rd
man/import_fibrosis.Rd
man/kras.Rd
man/pipe.Rd
man/plot_backbone_modulenet_simplify.Rd
man/plot_example.Rd
man/plot_reduced_dim.Rd
man/plot_reduced_dim_together.Rd
man/step1_fail.Rd
man/tcdd.Rd
man/tgfb.Rd
man/tree.Rd
man/tree_sce.Rd
man/unstability.Rd
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
vignettes/Examples.Rmd
vignettes/Fibrosis.Rmd
vignettes/KRAS.Rmd
vignettes/Simulations.Rmd
vignettes/TCDD.Rmd
vignettes/TGFB.Rmd
vignettes/ref.bib
