update docs site

BorchLab · Nov 17, 2023 · 88d1ea5 · 88d1ea5
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diff --git a/index.md b/index.md
@@ -18,6 +18,7 @@ scRepertoire is compatible and integrated with the R packages [Trex](https://git
 ```
 devtools::install_github("ncborcherding/scRepertoire")
 ```
+
 #### Most up-to-date version
 ```
 devtools::install_github("ncborcherding/scRepertoire@dev")

diff --git a/inst/pkgdown.yml b/inst/pkgdown.yml
@@ -18,8 +18,7 @@ articles:
   SC_Visualizations: SC_Visualizations.html
   Trex: Trex.html
   Trex_Trajectory: Trex_Trajectory.html
-  vignette: vignette.html
-last_built: 2023-11-04T11:34Z
+last_built: 2023-11-17T15:37Z
 urls:
   reference: https://www.borch.dev/uploads/scRepertoire/reference
   article: https://www.borch.dev/uploads/scRepertoire/articles

diff --git a/vignettes/articles/Installation.Rmd b/vignettes/articles/Installation.Rmd
@@ -40,15 +40,6 @@ knitr::opts_chunk$set(
 
 scRepertoire requires [R](https://www.r-project.org/) version 4.0 or greater. Highly recommend installing [R Studio](https://posit.co/downloads/).
 
-## Install from Bioconductor 
-scRepertoire can be installed from [Bioconductor](https://www.bioconductor.org/packages/release/bioc/html/scRepertoire.html) for all platforms using standard installation methods:
-```
-if (!require("BiocManager", quietly = TRUE))
-    install.packages("BiocManager")
-
-BiocManager::install("scRepertoire")
-```
-
 ## Release Notes  
 A full copy of the changes in each version can be found in the [NEWS/ChangeLog](https://borch.dev/uploads/scRepertoire/news/index.html).
 
@@ -57,7 +48,7 @@ A full copy of the changes in each version can be found in the [NEWS/ChangeLog](
 scRepertoire is an active project, that receives a number of changes based on user feedback, the most up-to-date versions are available via the GitHub repositories. These versions can be installed using ```devtools::install_github()``` or ```remotes::install_github()```. The **dev** version is the active development branch and might be less stable than the main branch or bioconductor versions. 
 
 ```
-devtools::install_github(repo = "ncborcherding/scRepertoire", ref = "v2)
+devtools::install_github(repo = "ncborcherding/scRepertoire")
 
 remotes::install_github(repo = "ncborcherding/scRepertoire", ref = "dev")
 ```
diff --git a/vignettes/articles/Trex_Trajectory.Rmd b/vignettes/articles/Trex_Trajectory.Rmd
-Original file line number
+Diff line change
@@ Expand Up @@
     ```
     devtools::install_github("ncborcherding/scRepertoire")
     ```
     #### Most up-to-date version
     ```
     devtools::install_github("ncborcherding/scRepertoire@dev")
@@ Expand Down @@