Files in ClemensKohl/APL

Association Plots

.Rbuildignore

.gitignore

DESCRIPTION

LICENSE.md

NAMESPACE

NEWS.md R/CA.R R/apl.R R/constructor.R R/convert.R R/generic_methods.R R/import_packages.R R/plot.R R/utils-pipe.R README.md

docs/404.html

docs/LICENSE.html

docs/articles/APL.html

docs/articles/APL_files/accessible-code-block-0.0.1/empty-anchor.js

docs/articles/APL_files/figure-html/apl_platelets_plot-1.png

docs/articles/APL_files/figure-html/apl_plot_platelets-1.png

docs/articles/APL_files/figure-html/bcell_apl-1.png

docs/articles/APL_files/figure-html/biplot-1.png

docs/articles/APL_files/figure-html/ca_pbmc-1.png

docs/articles/APL_files/figure-html/preprocessing-1.png

docs/articles/APL_files/figure-html/runAPL-1.png

docs/articles/APL_files/figure-html/scree_plot-1.png

docs/articles/APL_files/figure-html/seurat_apl-1.png

docs/articles/APL_files/figure-html/seurat_apl-2.png

docs/articles/APL_files/figure-html/topGO_plot-1.png

docs/articles/index.html

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/Rplot001.png

docs/reference/Rplot002.png

docs/reference/Rplot003.png

docs/reference/apl-1.png

docs/reference/apl.html

docs/reference/apl_coords.html

docs/reference/apl_ggplot.html

docs/reference/apl_plotly.html

docs/reference/apl_score.html

docs/reference/apl_topGO-1.png

docs/reference/apl_topGO.html

docs/reference/as.cacomp.html

docs/reference/as.list-cacomp-method.html

docs/reference/ca_3Dplot.html

docs/reference/ca_biplot.html

docs/reference/ca_coords.html

docs/reference/cacomp-class.html

docs/reference/cacomp.html

docs/reference/cacomp_names.html

docs/reference/cacomp_slot.html

docs/reference/check_cacomp.html

docs/reference/comp_std_residuals.html

docs/reference/elbow_method-1.png

docs/reference/elbow_method.html

docs/reference/figures/fig_AP.png

docs/reference/index.html

docs/reference/is.empty.html

docs/reference/libs/crosstalk-1.1.0.1/css/crosstalk.css

docs/reference/libs/crosstalk-1.1.0.1/js/crosstalk.js

docs/reference/libs/crosstalk-1.1.0.1/js/crosstalk.js.map

docs/reference/libs/crosstalk-1.1.0.1/js/crosstalk.min.js

docs/reference/libs/crosstalk-1.1.0.1/js/crosstalk.min.js.map

docs/reference/libs/crosstalk-1.2.0/css/crosstalk.min.css

docs/reference/libs/crosstalk-1.2.0/js/crosstalk.js

docs/reference/libs/crosstalk-1.2.0/js/crosstalk.js.map

docs/reference/libs/crosstalk-1.2.0/js/crosstalk.min.js

docs/reference/libs/crosstalk-1.2.0/js/crosstalk.min.js.map

docs/reference/libs/crosstalk-1.2.0/scss/crosstalk.scss

docs/reference/libs/htmlwidgets-1.5.3/htmlwidgets.js

docs/reference/libs/htmlwidgets-1.5.4/htmlwidgets.js

docs/reference/libs/jquery-1.11.3/jquery.js

docs/reference/libs/jquery-1.11.3/jquery.min.js

docs/reference/libs/jquery-1.11.3/jquery.min.map

docs/reference/libs/jquery-3.5.1/jquery-AUTHORS.txt

docs/reference/libs/jquery-3.5.1/jquery.js

docs/reference/libs/jquery-3.5.1/jquery.min.js

docs/reference/libs/jquery-3.5.1/jquery.min.map

docs/reference/libs/plotly-binding-4.10.0/plotly.js

docs/reference/libs/plotly-binding-4.9.3/plotly.js

docs/reference/libs/plotly-htmlwidgets-css-1.57.1/plotly-htmlwidgets.css

docs/reference/libs/plotly-htmlwidgets-css-2.5.1/plotly-htmlwidgets.css

docs/reference/libs/plotly-main-1.57.1/plotly-latest.min.js

docs/reference/libs/plotly-main-2.5.1/plotly-latest.min.js

docs/reference/libs/typedarray-0.1/typedarray.min.js

docs/reference/pick_dims-1.png

docs/reference/pick_dims.html

docs/reference/pipe.html

docs/reference/plot_enrichment-1.png

docs/reference/plot_enrichment.html

docs/reference/recompute.html

docs/reference/rm_zeros.html

docs/reference/runAPL-1.png

docs/reference/runAPL-2.png

docs/reference/runAPL-3.png

docs/reference/runAPL.html

docs/reference/run_cacomp.html

docs/reference/scree_plot.html

docs/reference/show.cacomp.html

docs/reference/subset_dims.html

docs/reference/var_rows.html

docs/sitemap.xml

inst/CITATION

inst/python/python_svd.py

man/apl.Rd man/apl_coords.Rd man/apl_ggplot.Rd man/apl_plotly.Rd man/apl_score.Rd man/apl_topGO.Rd man/as.cacomp.Rd man/as.list-cacomp-method.Rd man/ca_3Dplot.Rd man/ca_biplot.Rd man/ca_coords.Rd man/cacomp-class.Rd man/cacomp.Rd man/cacomp_names.Rd man/cacomp_slot.Rd man/calc_residuals.Rd man/check_cacomp.Rd man/clip_residuals.Rd man/comp_NB_residuals.Rd man/comp_ft_residuals.Rd man/comp_std_residuals.Rd man/elbow_method.Rd

man/figures/fig_AP.png

man/inertia_rows.Rd man/is.empty.Rd man/permutation_cutoff.Rd man/pick_dims.Rd man/pipe.Rd man/plot_enrichment.Rd man/random_direction_cutoff.Rd man/recompute.Rd man/rm_zeros.Rd man/runAPL.Rd man/run_cacomp.Rd man/scree_plot.Rd man/show.cacomp.Rd man/sub-cacomp-ANY-ANY-ANY-method.Rd man/subset_dims.Rd man/var_rows.Rd tests/testthat.R tests/testthat/test-CA.R tests/testthat/test-apl.R tests/testthat/test-convert.R

tests/testthat/testdata/AP_coordinates/example1/AP_coordinates_genes.txt

tests/testthat/testdata/AP_coordinates/example1/AP_coordinates_samples.txt

tests/testthat/testdata/AP_coordinates/example1/gene_ranking.txt

tests/testthat/testdata/AP_coordinates/example1/genes_order.txt

tests/testthat/testdata/AP_coordinates/example2/AP_coordinates_genes.txt

tests/testthat/testdata/AP_coordinates/example2/AP_coordinates_samples.txt

tests/testthat/testdata/AP_coordinates/example2/gene_ranking.txt

tests/testthat/testdata/AP_coordinates/example2/genes_order.txt

tests/testthat/testdata/AP_coordinates/example3/AP_coordinates_genes.txt

tests/testthat/testdata/AP_coordinates/example3/AP_coordinates_samples.txt

tests/testthat/testdata/AP_coordinates/example3/gene_ranking.txt

tests/testthat/testdata/AP_coordinates/example3/genes_order.txt

tests/testthat/testdata/AP_coordinates/input_data.txt

tests/testthat/testdata/AP_coordinates/notes.txt

tests/testthat/testdata/countries.rda

tests/testthat/testdata/input_data.tsv

tests/testthat/testdata/smoke.rda

tests/testthat/testdata/smoke_scRNAseq.rda

vignettes/.gitignore

vignettes/APL.Rmd

ClemensKohl/APL documentation built on Dec. 31, 2022, 8:13 a.m.