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Author: R-Wright-1

README.md

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+---
+layout: landingpage
+title: "Microbiome Helper"
+---
+
+# Welcome to Microbiome Helper
+Resources and tutorials for microbiome data analysis. We are currently still building this website, but in the meantime you can view all of our current analysis workflows on our [Github Wiki](https://github.com/LangilleLab/microbiome_helper/wiki/Home-%E2%80%90-Microbiome-Helper-2).

index.md

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 ---
-layout: default
+layout: landingpage
 title: "Microbiome Helper"
 ---
 

marker_gene.md

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+---
+layout: default
+title: "Marker gene workflow"
+show_sidetoc: true
+---
+
+# Marker gene workflow
+This page will show our marker gene workflow. In the meantime, you can see the previous version on our [Github Wiki](https://github.com/LangilleLab/microbiome_helper/wiki/Microbiome-Helper-2-Marker-gene-workflow).
+
+This is what a bash code snippet will look like:
+```{bash}
+#some code to go here
+```

metagenome_taxonomy.md

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+---
+layout: default
+title: "Metagenomic taxonomic annotation workflow"
+show_sidetoc: true
+---
+
+# Metagenomic taxonomic annotation workflow
+This page will show our metagenomic taxonomic annotation workflow. In the meantime, you can see the previous version on our [Github Wiki](https://github.com/LangilleLab/microbiome_helper/wiki/Microbiome-Helper-2-Annotation-of-reads-with-Kraken2-(and-taxonomic-profiling-with-Bracken))
+
+This is what a bash code snippet will look like:
+```{bash}
+#some code to go here
+```