1. pcaExplorer
  2. _pkgdown.yml
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adding the deprecated part into the pkgdown docs to have it correctly rendered

Federico Marini authored on 25/09/2024 17:43:01
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_pkgdown.yml
History View file @ d221cb6
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@@ -61,3 +61,7 @@ reference:
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   - '`distro_expr`'
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   - '`geneprofiler`'
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   - '`makeExampleDESeqDataSet_multifac`'
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+- title: Deprecated functions in pcaExplorer
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+  desc: ~
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+  contents:
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+  - '`deprecated`'
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updated static docs via pkgdown

Federico Marini authored on 12/02/2019 16:27:00
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_pkgdown.yml
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@@ -24,7 +24,7 @@ navbar:
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       text: Reference
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       href: reference/index.html
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     intro:
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-      text: Get started
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+      text: User guide
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       href: articles/pcaExplorer.html
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     github:
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       icon: fa-github fa-lg
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updating pkgdown docu with better structure of reference/function manuals

Federico Marini authored on 26/09/2018 10:21:14
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_pkgdown.yml
History View file @ aec6772
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@@ -29,3 +29,35 @@ navbar:
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     github:
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       icon: fa-github fa-lg
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       href: https://github.com/federicomarini/pcaExplorer
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+
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+reference:
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+- title: The pcaExplorer package
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+  desc: Main functions and info on the `pcaExplorer` package
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+  contents:
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+  - '`pcaExplorer-pkg`'
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+  - '`pcaExplorer`'
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+- title: Working with Principal Components
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+  desc: Functions for working efficiently with Principal Components
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+  contents:
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+  - '`pcaplot`'
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+  - '`pcaplot3d`'
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+  - '`pcascree`'
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+  - '`correlatePCs`'
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+  - '`genespca`'
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+  - '`hi_loadings`'
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+  - '`plotPCcorrs`'
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+- title: Annotation and Functional interpretation
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+  desc: Functions for annotating and performing functional interpretation
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+  contents:
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+  - '`get_annotation`'
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+  - '`get_annotation_orgdb`'
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+  - '`topGOtable`'
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+  - '`pca2go`'
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+  - '`limmaquickpca2go`'
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+- title: Expression data exploration
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+  desc: ~
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+  contents:
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+  - '`pair_corr`'
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+  - '`distro_expr`'
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+  - '`geneprofiler`'
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+  - '`makeExampleDESeqDataSet_multifac`'
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first backbone for the customization of the pkgdown based site

Federico Marini authored on 25/09/2018 15:15:38
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_pkgdown.yml
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new file mode 100644
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@@ -0,0 +1,31 @@
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+authors:
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+  Federico Marini:
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+    href: https://federicomarini.github.io
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+
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+template:
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+  params:
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+    bootswatch: cosmo
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+
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+navbar:
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+  structure:
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+    left:
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+    - home
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+    - intro
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+    - reference
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+    - articles
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+    - tutorials
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+    - news
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+    right: github
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+  components:
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+    home:
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+      icon: fa-home fa-lg
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+      href: index.html
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+    reference:
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+      text: Reference
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+      href: reference/index.html
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+    intro:
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+      text: Get started
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+      href: articles/pcaExplorer.html
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+    github:
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+      icon: fa-github fa-lg
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+      href: https://github.com/federicomarini/pcaExplorer