From 0aefbe9b9b420a9d708292047bbdf001a550a44c Mon Sep 17 00:00:00 2001 From: samuel-marsh Date: Mon, 20 Nov 2023 16:39:48 -0500 Subject: [PATCH] build pkgdown site --- docs/404.html | 2 +- docs/LICENSE.html | 2 +- docs/articles/Cell_Bender_Functions.html | 4 +- .../figure-html/unnamed-chunk-17-1.png | Bin 147990 -> 148474 bytes .../figure-html/unnamed-chunk-19-1.png | Bin 728282 -> 750112 bytes docs/articles/Color_Palettes.html | 4 +- docs/articles/FAQ.html | 4 +- docs/articles/Gene_Expression_Plotting.html | 4 +- docs/articles/Helpers_and_Utilities.html | 74 +-- docs/articles/Installation.html | 4 +- docs/articles/Iterative_Plotting.html | 4 +- docs/articles/LIGER_Functions.html | 4 +- .../Markers_and_Cluster_Annotation.html | 4 +- docs/articles/Misc_Functions.html | 4 +- docs/articles/QC_Plots.html | 4 +- docs/articles/Read_and_Write_Functions.html | 4 +- docs/articles/Sequencing_QC_Plots.html | 4 +- docs/articles/Statistics.html | 442 +++++++++--------- 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docs/reference/UnRotate_X.html | 2 +- .../VariableFeaturePlot_scCustom.html | 2 +- .../Variable_Features_ALL_LIGER.html | 2 +- docs/reference/VlnPlot_scCustom.html | 2 +- docs/reference/ensembl_mito_id.html | 2 +- docs/reference/ensembl_ribo_id.html | 2 +- docs/reference/ieg_gene_list.html | 2 +- docs/reference/index.html | 2 +- docs/reference/msigdb_qc_gene_list.html | 2 +- docs/reference/plotFactors_scCustom.html | 2 +- docs/reference/scCustomize-package.html | 6 +- docs/reference/scCustomize_Palette.html | 2 +- docs/reference/theme_ggprism_mod.html | 2 +- docs/reference/viridis_shortcut.html | 2 +- inst/pkgdown.yml | 2 +- 163 files changed, 455 insertions(+), 432 deletions(-) diff --git a/docs/404.html b/docs/404.html index c34c12044f..8afc15ac16 100644 --- a/docs/404.html +++ b/docs/404.html @@ -32,7 +32,7 @@ scCustomize - 2.0.0 + 2.0.1 diff --git a/docs/LICENSE.html b/docs/LICENSE.html index d159886eaa..b3dad0a714 100644 --- a/docs/LICENSE.html +++ b/docs/LICENSE.html @@ -17,7 +17,7 @@ scCustomize - 2.0.0 + 2.0.1 diff --git a/docs/articles/Cell_Bender_Functions.html b/docs/articles/Cell_Bender_Functions.html index 8a609db4ba..8ba8daf6ae 100644 --- a/docs/articles/Cell_Bender_Functions.html +++ b/docs/articles/Cell_Bender_Functions.html @@ -33,7 +33,7 @@ scCustomize - 2.0.0 + 2.0.1 @@ -130,7 +130,7 @@ @@ -129,7 +129,7 @@ @@ -129,7 +129,7 @@ @@ -129,7 +129,7 @@ @@ -130,7 +130,7 @@ @@ -129,7 +129,7 @@ @@ -129,7 +129,7 @@ @@ -129,7 +129,7 @@ @@ -131,7 +131,7 @@

Marker Identification & Cluster Annotation Helpers

-

Compiled: November 15, +

Compiled: November 20, 2023

Source: vignettes/articles/Markers_and_Cluster_Annotation.Rmd diff --git a/docs/articles/Misc_Functions.html b/docs/articles/Misc_Functions.html index a1aa839401..6b922bb82d 100644 --- a/docs/articles/Misc_Functions.html +++ b/docs/articles/Misc_Functions.html @@ -33,7 +33,7 @@ scCustomize - 2.0.0 + 2.0.1 @@ -129,7 +129,7 @@ @@ -130,7 +130,7 @@ @@ -129,7 +129,7 @@ @@ -130,7 +130,7 @@ @@ -130,7 +130,7 @@ diff --git a/docs/authors.html b/docs/authors.html index 70680ce044..df33730e9c 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -17,7 +17,7 @@ scCustomize - 2.0.0 + 2.0.1 @@ -132,13 +132,13 @@

Citation

Marsh S (2023). scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing. -R package version 2.0.0, https://samuel-marsh.github.io/scCustomize/, https://doi.org/10.5281/zenodo.5706431, https://github.com/samuel-marsh/scCustomize. +R package version 2.0.1, https://samuel-marsh.github.io/scCustomize/, https://doi.org/10.5281/zenodo.5706431, https://github.com/samuel-marsh/scCustomize.

@Manual{,
   title = {scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing},
   author = {Samuel Marsh},
   year = {2023},
-  note = {R package version 2.0.0, https://samuel-marsh.github.io/scCustomize/, https://doi.org/10.5281/zenodo.5706431},
+  note = {R package version 2.0.1, https://samuel-marsh.github.io/scCustomize/, https://doi.org/10.5281/zenodo.5706431},
   url = {https://github.com/samuel-marsh/scCustomize},
 }
diff --git a/docs/index.html b/docs/index.html index 86ce46f1ac..8b223bb414 100644 --- a/docs/index.html +++ b/docs/index.html @@ -12,7 +12,7 @@ - + scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing — scCustomize-package • scCustomize @@ -18,7 +18,7 @@ scCustomize - 2.0.0 + 2.0.1 @@ -108,7 +108,7 @@

scCustomize: Custom Visualizations & Functions for Streamlined Analyses

Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of use and to create more aesthetic and functional visuals. 2) Improve speed/reproducibility of common tasks/pieces of code in scRNA-seq analysis with a single or group of functions. For citation please use: Marsh SE (2021) "Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing" doi:10.5281/zenodo.5706430 -.

+ RRID:SCR_024675.

diff --git a/docs/reference/scCustomize_Palette.html b/docs/reference/scCustomize_Palette.html index d1fe44f366..04f75802d7 100644 --- a/docs/reference/scCustomize_Palette.html +++ b/docs/reference/scCustomize_Palette.html @@ -17,7 +17,7 @@ scCustomize - 2.0.0 + 2.0.1 diff --git a/docs/reference/theme_ggprism_mod.html b/docs/reference/theme_ggprism_mod.html index 69453519b8..cacdbb1600 100644 --- a/docs/reference/theme_ggprism_mod.html +++ b/docs/reference/theme_ggprism_mod.html @@ -17,7 +17,7 @@ scCustomize - 2.0.0 + 2.0.1 diff --git a/docs/reference/viridis_shortcut.html b/docs/reference/viridis_shortcut.html index ab8213f8e0..fd272b8d1f 100644 --- a/docs/reference/viridis_shortcut.html +++ b/docs/reference/viridis_shortcut.html @@ -17,7 +17,7 @@ scCustomize - 2.0.0 + 2.0.1 diff --git a/inst/pkgdown.yml b/inst/pkgdown.yml index bb6880c70b..71f235eb40 100644 --- a/inst/pkgdown.yml +++ b/inst/pkgdown.yml @@ -16,7 +16,7 @@ articles: Read_and_Write_Functions: Read_and_Write_Functions.html Sequencing_QC_Plots: Sequencing_QC_Plots.html Statistics: Statistics.html -last_built: 2023-11-15T20:11Z +last_built: 2023-11-20T21:27Z urls: reference: https://samuel-marsh.github.io/scCustomize/reference article: https://samuel-marsh.github.io/scCustomize/articles