---
title: "omicsTools Workflow"
author: "Yaoxiang Li"
output: rmarkdown::html_vignette
vignette: >
  %\VignetteIndexEntry{omicsTools Workflow}
  %\VignetteEngine{knitr::rmarkdown}
  %\VignetteEncoding{UTF-8}
---

This example runs a feature table through validation, preprocessing,
group comparison, and report export.

```{r}
library(omicsTools)
data <- data.frame(
  sample_id = paste0("S", 1:6),
  group = rep(c("control", "case"), each = 3),
  feature_a = c(1, 2, 3, 2, 4, 6),
  feature_b = c(3, 4, 2, 4, 2, 3)
)
result <- process_omics_data(
  data, group_col = "group", reference = "control", comparison = "case"
)
result$comparison
```

```{r, eval=FALSE}
export_omics_results(result, "results")
```

Created by Yaoxiang Li.