--- a
+++ b/inst/templates/TemplateIndexPage.Rmd
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+---
+title: <center>AMARETTO Report</center>
+output: 
+  html_document:
+    theme: cerulean
+    highlight: NULL
+---
+<style>
+  .main-container {
+    max-width:  100% !important;
+    padding-right: 1% !important;
+    padding-left: 1% !important;
+    margin-right: 1% !important;
+    margin-left: 1% !important;
+    table-layout: fixed !important;
+  }
+</style>
+
+<center>
+## Run Information
+<br>
+Number of Samples in Gene Expression Data = `r nExp`  
+Number of Samples in DNA Copy Number Data = `r nCNV`  
+Number of Samples in DNA Methylation Data = `r nMET`  
+Number of `r VarPercentage`% most variable Genes = `r nGenes`  
+Number of Regulatory Modules = `r nMod`  
+<br><br>
+
+## Overview of Regulatory Modules
+<br><br><br>
+```{r Modules,echo=FALSE}
+dt_overview
+```
+<br><br><br>
+
+## Assignments of Genes to Regulatory Modules
+<br><br><br>
+```{r Genes,echo=FALSE}
+dt_genes
+```
+<br><br><br>
+
+## Enrichments of Functional Categories in Regulatory Modules
+<br><br><br>
+```{r Genesets,echo=FALSE}
+dt_genesetsall
+```
+
+<br><br><br>
+<!--
+## Associations of Phenotypes to Regulatory Modules
+
+<br><br><br>
+
+```{r Phenotypes,echo=FALSE}
+phenotype_association_datatable
+```
+<br><br><br>
+-->
+</center>