this is how you write comments in the rmardown without hashtag symbols.

to run the r code in markdown by denoting the section of code by calling the code “code chunks”.

Below is a code chunks:

toothdata <- ToothGrowth

head(toothdata)

##    len supp dose
## 1  4.2   VC  0.5
## 2 11.5   VC  0.5
## 3  7.3   VC  0.5
## 4  5.8   VC  0.5
## 5  6.4   VC  0.5
## 6 10.0   VC  0.5

to run the code just use “play” button and the result will be printed in the r markdown file.

fit <- lm(len ~ dose, data = toothdata)

b <- fit$coefficients
plot(len ~ dose, data = toothdata)

abline(lm(len ~ dose, data = toothdata))

Figure 1: Guinea Pig tooth growth

the slope of the regression line is 9.7635714.

section Headers

Section and subsection in r markdown, by using ‘#’ similar to number or bullet points

first level header

Second level header

Third level header

put space after the hash-tag

to add the bullet point- type in R markdown

one item
one item
one item
one more item
one more item
- one last item

in r markdown indentation matters!

first Item
Second Item
Third Item

subitem 1
suBitem 2
subitem 3

Block Quotes

the quotes can be added by using ‘>’

“Genes are ike the stor, and DNA is the language that the story us written in.”

— Sam Kean

Hyperlinks

Hyperlinks can be incorporated into HTML files by using the link…to r markdown’s homepage for this example. RMarkdown

Formulas

to put formatted formulas into markdown using two dollar signs.

Hardy-weinberg Formula

\[p^2 + 2pq + q^2 = 1\]

and you get really complex as well!

\[ \Theta = \begin {pmatrix} \alpha & \beta \\ \gamma & \ \delta \end {pmatrix}\]

The backslash with name of Greek alphabet will give the Greek symbols example: (make sure there is no space between and the name)

Code Chunk

code chunk options

there are also options for knitr which interprets code chunk. it has following options.

Eval (T or F): whether or not to evaluate the code chunk

Echo (T or F) : whether or not to show the code for the chunk but result will be printed.

Cache: if you do not want to want evaluated knitr again, enable it. specially in long runtimes.

fig.width or fig.height: graphical tool - plots in inches. write figures in the knitr then in a separate files.

out.width or out.height: the output size of the r plots in the r dcument.

fig.cap: to create figure captions.

to add the table of contents using the YAML code which can be added at the very top of the document. by adding this way: title: “HTML class” author: “Preeti” date: “2024-08-14” output: html_document: toc: true toc_float: true

this will give us a floating table of content on the right hand side of the documents.

Tabs

to add tabs by specifying the each section adding “{.tabset}” after the line. every subsequent header will be a new tab.

Themes

on adding themes which will change the highlighting color and hyperlink colour by adding theme in YAML following:

cerulean journal flatly readable spacelab united cosmo lumen paper sandstone sipmplex yet null

to change the color by specifying highlight:

default tango payments kate monochrome espresso zenburn haddock textmate

code folding

the code_folding option allow us to toggle between displaying the code and hiding the code by:

summary

there are many options to customize the HTML format. can be used to display a “portofolio” of your work.

code_folding:hide

HTML class

Preeti

2024-08-14