---
title: "ChIPexoQualExample: Accompanying example data for ChIPexoQual"
author: |
        | Rene Welch and Sündüz Keleş
        | Department of Statistics, University of Wisconsin-Madison
output: 
    BiocStyle::html_document
bibliography: biblio.bib        
vignette: >
    %\VignetteIndexEntry{Vignette Title}
    %\VignetteEngine{knitr::rmarkdown}
    %\VignetteEncoding{UTF-8}  
---

<meta http-equiv="content-type" content="text/html;charset=utf-8" />

```{r style, echo = FALSE, results = 'asis'}

    if(requireNamespace("base", quietly = TRUE)){
        base::library("BiocStyle")
    }
    
    markdown(css.files = c('custom.css'))

```

# Overview

`r Biocpkg("ChIPexoQualExample")` is an the accompanying example data package for `r Biocpkg("ChIPexoQual")`. The data was built from the FoxA1 in mouse liver experiment published by [@exoillumina], by considering only the reads aligned to **chr1**. To load the package it is necessary to use:

```{r muteload,include=FALSE,echo=FALSE,eval = TRUE}
    
    library(ChIPexoQualExample)
    
```    

```{r load,include=TRUE,echo=TRUE,eval=FALSE}

    library(ChIPexoQualExample)

```

This package contains these aligned reads and an example run with `r Biocpkg("ChIPexoQual")`:

```{r files}

    ## example raw files
    list.files(system.file("extdata",package = "ChIPexoQualExample"))

```


# SessionInfo

```{r info,include=TRUE,echo =TRUE,eval=TRUE}
sessionInfo()
```

# References