parent.Rmd

---
title: "Example Differential Expression Manuscript"
---

```{r child='Rmd/init/header_de.Rmd'}
```

```{r child='analysis_settings_v1.0.Rmd'}
```


```{r child='Rmd/init/load_settings_de.Rmd'}
```

Methods
=======

```{r child='Rmd/init/load_counts.Rmd'}
```

```{r child='Rmd/init/load_host_annotations.Rmd'}
```

```{r child='Rmd/init/create_expression_set.Rmd'}
```

```{r child='Rmd/main/filter_counts.Rmd'}
```

```{r child='Rmd/main/gene_visualization.Rmd'}
```

```{r child='Rmd/main/data_prep_de.Rmd'}
```

```{r child='Rmd/main/differential_expression.Rmd'}
```

```{r child='Rmd/results/go_enrichment_de.Rmd'}
```

```{r child='Rmd/results/kegg_enrichment_de.Rmd'}
```

```{r child='Rmd/results/save_output_de.Rmd'}
```

Version Information
===================

```{r}
sessionInfo()
```