---
title: 'Principle component analysis plot'
output:
    html_document:
      highlight: pygments
---

```{r setup, include=FALSE, warning=FALSE, message=FALSE}
knitr::opts_chunk$set(error = TRUE, echo = FALSE)
```


```{r}
vsd <- vst(dds, blind=FALSE)
p = plotPCA(vsd, intgroup=c(opt$X_D)) + 
  scale_color_discrete(name = 'Group') +
  theme_classic()
ggplotly(p)
```