Files in theislab/destiny

Creates diffusion maps

.Rbuildignore

.github/workflows/check-bioc.yml

.gitignore

CMakeLists.txt

DESCRIPTION

License.md

NAMESPACE

NEWS

R/RcppExports.R R/aaa.r R/accessor-generics.r R/censoring.r R/colorlegend.r R/cube_helix.r R/dataset-helpers.r R/destiny-package.r R/diffusionmap-methods-accession.r R/diffusionmap-methods.r R/diffusionmap-plotting.r R/diffusionmap.r R/dist-matrix-coerce.r R/dpt-branching.r R/dpt-helpers.r R/dpt-methods-matrix.r R/dpt-methods.r R/dpt-plotting.r R/dpt.r R/eig_decomp.r R/expressionset-helpers.r R/find_dm_k.r R/gene-relevance-methods.r R/gene-relevance-plotting-differential-map.r R/gene-relevance-plotting-gr-map.r R/gene-relevance-plotting-rank.r R/gene-relevance-plotting.r R/gene-relevance.r R/guo-data.r R/knn.r R/l_which.r R/methods-coercion.r R/methods-extraction.r R/methods-update.r R/plothelpers.r R/predict.r R/projection-dist.r R/rankcor.r R/s4-unions.r R/sigmas-plotting.r R/sigmas.r R/utils.r README.md

ROADMAP

data/guo.rda

data/guo_norm.rda

demo/00Index

demo/destiny.r

destiny.Rproj

docs/404.html

docs/LICENSE-text.html

docs/authors.html

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/DPT-matrix-methods-1.png

docs/reference/DPT-matrix-methods.html

docs/reference/DPT-methods-1.png

docs/reference/DPT-methods.html

docs/reference/DPT.html

docs/reference/DiffusionMap-accessors-1.png

docs/reference/DiffusionMap-accessors.html

docs/reference/DiffusionMap-class.html

docs/reference/DiffusionMap-methods.html

docs/reference/ExpressionSet-helpers.html

docs/reference/Gene-Relevance-methods.html

docs/reference/Gene-Relevance-plotting-1.png

docs/reference/Gene-Relevance-plotting-2.png

docs/reference/Gene-Relevance-plotting-3.png

docs/reference/Gene-Relevance-plotting-4.png

docs/reference/Gene-Relevance-plotting.html

docs/reference/Gene-Relevance.html

docs/reference/Sigmas-class.html

docs/reference/coercions.html

docs/reference/colorlegend-1.png

docs/reference/colorlegend.html

docs/reference/cube_helix-1.png

docs/reference/cube_helix-2.png

docs/reference/cube_helix.html

docs/reference/destiny-1.png

docs/reference/destiny-2.png

docs/reference/destiny-3.png

docs/reference/destiny-deprecated.html

docs/reference/destiny-generics-1.png

docs/reference/destiny-generics.html

docs/reference/destiny.html

docs/reference/dm_predict-1.png

docs/reference/dm_predict.html

docs/reference/eig_decomp.html

docs/reference/extractions.html

docs/reference/find_dm_k-1.png

docs/reference/find_dm_k-2.png

docs/reference/find_dm_k.html

docs/reference/find_sigmas-1.png

docs/reference/find_sigmas.html

docs/reference/find_tips-1.png

docs/reference/find_tips.html

docs/reference/guo.html

docs/reference/index.html

docs/reference/knn.html

docs/reference/l_which.html

docs/reference/plot.DPT-1.png

docs/reference/plot.DPT-2.png

docs/reference/plot.DPT-3.png

docs/reference/plot.DPT-4.png

docs/reference/plot.DPT.html

docs/reference/plot.DiffusionMap-1.png

docs/reference/plot.DiffusionMap.html

docs/reference/plot.Sigmas-1.png

docs/reference/plot.Sigmas.html

docs/reference/projection_dist.html

docs/reference/random_root.html

docs/reference/updateObject-methods.html

inst/CITATION

man/DPT-matrix-methods.Rd man/DPT-methods.Rd man/DPT.Rd man/DiffusionMap-accessors.Rd man/DiffusionMap-class.Rd man/DiffusionMap-methods.Rd man/ExpressionSet-helpers.Rd man/Gene-Relevance-methods.Rd man/Gene-Relevance-plotting.Rd man/Gene-Relevance.Rd man/Sigmas-class.Rd man/coercions.Rd man/colorlegend.Rd man/cube_helix.Rd man/destiny-generics.Rd man/destiny.Rd man/dm_predict.Rd man/eig_decomp.Rd man/extractions.Rd man/find_dm_k.Rd man/find_sigmas.Rd man/find_tips.Rd man/guo.Rd man/knn.Rd man/l_which.Rd man/plot.DPT.Rd man/plot.DiffusionMap.Rd man/plot.Sigmas.Rd man/projection_dist.Rd man/random_root.Rd man/updateObject-methods.Rd

src/Makevars

src/RcppExports.cpp

src/censoring.cpp

src/exports.h

src/utils.cpp

src/utils.h

tests/testthat.R tests/testthat/test_basic.r tests/testthat/test_dataset_types.r tests/testthat/test_distances.r tests/testthat/test_ggplot.r tests/testthat/test_gr.r tests/testthat/test_knn.r tests/testthat/test_pca.r tests/testthat/test_utils.r

vignettes/.install_extras

vignettes/DPT.Rmd vignettes/Diffusion-Map-recap.Rmd vignettes/Diffusion-Maps.Rmd vignettes/Gene-Relevance.Rmd vignettes/Global-Sigma.Rmd

vignettes/bibliography.bib

vignettes/mmc4.xls

vignettes/mmc6.xls

vignettes/tidyverse.Rmd

theislab/destiny documentation built on Jan. 27, 2024, 9:57 p.m.