R_code.Rmd

---
title: "read_bed_bim_bed_format_R_code"
author: "Yue Gu"
date: "27/06/2022"
output: html_document
---

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

## R Markdown


```{r}
# check the working directory
getwd()
```

```{r}
# the current version of R we are using 
R.version
```

```{r}
#install.packages("genio")
```

```{r}
library(genio)
```

```{r}
# To clear the workspace environment
rm(list = ls())
```

[documentation](https://search.r-project.org/CRAN/refmans/genio/html/read_plink.html)

```{r}
bim <- read_bim('C:\\Users\\ygu34\\Desktop\\Research Data Steward\\Temporary_datashare\\Sanchez_Molano_Enrique\\Lop_genotypes')

View(bim)
```

```{r}
fam <- read_fam('C:\\Users\\ygu34\\Desktop\\Research Data Steward\\Temporary_datashare\\Sanchez_Molano_Enrique\\Lop_genotypes.fam')
View(fam)
```

```{r}
bed <- read_plink('C:\\Users\\ygu34\\Desktop\\Research Data Steward\\Temporary_datashare\\Sanchez_Molano_Enrique\\Lop_genotypes.bed')

View(bed)
```