METALtest.Rmd

---
title: "TestMETAL"
author: "The methylation in ART meta-analysis group"
date: "10/1/2020"
output: html_document
---

```{r, download}
download.file("http://csg.sph.umich.edu/abecasis/Metal/download/GlucoseExample.tar.gz", destfile = "GlucoseExample.tar.gz")
untar("GlucoseExample.tar.gz")
list.files("GlucoseExample/")



```

MARKER = Row.names
DEFAULT = (number of participants)
ALLELE = unmeth meth
FREQ = AveExpr
EFFECT = logFC
STDERR = SE
PVAL = P.Value


```{bash, metal1}
cd GlucoseExample
ls 
metal metal.txt
ls
head DGI_three_regions.txt
cat metal.txt

PROCESS DGI_three_regions.txt
```

Note that the `echo = FALSE` parameter was added to the code chunk to prevent printing of the R code that generated the plot.



## Session information

```{r,session}

sessionInfo()

```