quarto html and pdf

mikelove · Aug 26, 2024 · 3a68d9b · 3a68d9b
1 parent 8d46413
commit 3a68d9b
Show file tree

Hide file tree

Showing 15 changed files with 3,926 additions and 19 deletions.
diff --git a/README.html b/README.html
diff --git a/README.pdf b/README.pdf
diff --git a/README.Rmd → README.qmd b/README.Rmd → README.qmd
@@ -1,6 +1,12 @@
-# Bioconductor cheat sheet
-
-Also useful are Kasper Daniel Hansen's [Bioconductor class notes](http://kasperdanielhansen.github.io/genbioconductor/).
+---
+title: Bioconductor cheat sheet
+author: Michael Love
+format: 
+  html: default
+  pdf:
+    documentclass: article
+    geometry: "margin=1in"
+---
 
 ## Install
 
@@ -88,8 +94,6 @@ sub("Function: (.*) \\(package .*\\)","\\1",grep("Function",showMethods(classes=
 
 ## Annotations
 
-**Edit (May 2017)**: the below needs to be updated to show off AnnotationHub.
-
 For AnnotationHub examples, see:
 
 https://www.bioconductor.org/help/workflows/annotation/Annotation_Resources
@@ -343,7 +347,7 @@ My preferred quantification method is [Salmon](https://combine-lab.github.io/sal
 with `--gcBias` option enabled unless you know there is no GC dependence in the data,
 followed by [tximport](http://bioconductor.org/pacakges/tximport). Here is an example of usage:
 
-```{r}
+```
 coldata <- read.table("samples.txt")
 rownames(coldata) <- coldata$id
 files <- coldata$files; names(files) <- coldata$id

diff --git a/README_files/libs/bootstrap/bootstrap-icons.css b/README_files/libs/bootstrap/bootstrap-icons.css
diff --git a/README_files/libs/bootstrap/bootstrap-icons.woff b/README_files/libs/bootstrap/bootstrap-icons.woff
diff --git a/README_files/libs/bootstrap/bootstrap.min.css b/README_files/libs/bootstrap/bootstrap.min.css
diff --git a/README_files/libs/bootstrap/bootstrap.min.js b/README_files/libs/bootstrap/bootstrap.min.js
diff --git a/README_files/libs/clipboard/clipboard.min.js b/README_files/libs/clipboard/clipboard.min.js
diff --git a/README_files/libs/quarto-html/anchor.min.js b/README_files/libs/quarto-html/anchor.min.js
diff --git a/README_files/libs/quarto-html/popper.min.js b/README_files/libs/quarto-html/popper.min.js
diff --git a/README_files/libs/quarto-html/quarto-syntax-highlighting.css b/README_files/libs/quarto-html/quarto-syntax-highlighting.css