---
title: "Rmarkdown Intro"
author: 'Debdeep Pati (Acknowledgement to Moumita Karmakar and Melinda K. Higgins)'
output:
  html_document: default
  pdf_document: default
  word_document: default
Date: null
---

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

# This is a level one header
## R Markdown
### This is a level three heder
This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see <http://rmarkdown.rstudio.com>.

Here is a link to [GOOGLE](https://www.google.com)

Here is a word in **biology** and another word __stat__.
Here is a word in *biology* and another word _stat_.

When we compile our document, we are using the `rmarkdown` package


Here are some example R code
```
x<-rep(1,10)
mean(x)
```

Here is an example of a non-numbered list

* BreakFast
    - food
        + eggs
        + toast
        + bacon
    - drink
        + apple juice
* Lunch
    - taco
* Dinner
    - baked chicken
    - broccoli
    -rice
    
You can also make a numbered list

1. Breakfast
    a. food
        i)  egg
2.  Lunch
    a. honey glazed salmon
3. Dinner
    a. pork ribs
    b. sauted veggies
    c. pasta

Here is an example of blockquote:

> This is a block quote. 
> This paragraph has two lines
> 
>    1. this is a list inside a block quote
>    2. second item

Here is an example of nested block quote

> This is a block quote. 
> This paragraph has two lines
>
> > this text is nested

Here is an example of  R code in blockquote:

>     2+2
>     mean(c(1,2,3,4,5))

When you click the **Knit** button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:

```{r cars}
summary(cars)
```

## Including Plots

You can also embed plots, for example:

```{r pressure, echo=FALSE}
plot(pressure)
```

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

```{r pressurenew, fig.width=5, fig.height=5 }
plot(pressure)
```

## inserting table
Here is an useful link <https://rmarkdown.rstudio.com/authoring_pandoc_markdown.html%23raw-tex>

Another useful is **kable** function from `knitr` package. Another useful one is `printr` package
```{r}
knitr::kable(head(cars))
```


## insert an equation

$$ Y = \beta_{0} + \beta_{1}x $$
### inserting images
![metadata](/Users/debdeeppati/Dropbox/TAMU/teaching/UGbayes/markdown/source.gif)
#![cry](source.gif)

## insert text with some footnotes

Here is the  footnote [^1] and [^longnote]

Here is inline note ^[inine notes are easier to write ]

[^longnote]:longnote
[^1]: first footnote