How R Markdown helped me thrive in scientific research 📚 and advance my career development 👔USC Biostatistics Seminar 
Zhi Yang2019-10-171 / 67

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USC R Bootcamp

Nice turnout for the kickstart of the #uscrbootcamp with @malco_barrett, @brookemariebell, and @zhiiiyang spearheading day 1 of track 1! #rstats pic.twitter.com/4qPcsKzxW6
— George G. Vega Yon (@gvegayon) August 19, 2019

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Santa Barbara R Users Group and R-Ladies

We're visiting our #rstats friends up in Santa Barbara! @zhiiiyang giving a talk on how R Markdown can automate the last mile of your work @RLadiesSB pic.twitter.com/WXzS7hhWv7
— Los Angeles R Users (@la_Rusers) September 19, 2019

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P01 Family

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Happy Scientist Seminars

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R Markdown Flyer

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Antoine Lavoisier, Father of Modern Chemistry

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Google Search Results

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Marie's Drawing Examples

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Marie's Painting Teacher

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Introducing14 / 67

IntroducingR Markdown
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R Markdown

Guess which one is not made by R Markdown?

- A personal website

- A book

- A presentation

- An interactive website

- A dashboard

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The answer isNone of themThey are all built on R Markdown 😂16 / 67

Introduction to "downverse"

from harryprince/awesome-rmarkdown

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Don't worry

They are all just R Markdown!

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Reproducibility
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Reproducibility
Multiple output formats

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Reproducibility
Multiple output formats
Support multiple languages

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Reproducibility
Multiple output formats
Support multiple languages
Most importantly, not ugly

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Unifying Existent Things

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Unifying Existent Things

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Unifying Existent Things

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Where do you position yourself?

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Basics of .Rmd Files

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YAML with `ymlthis` by Malcolm Barrett

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Check out Malcolm's R Markdown Tutorial

Artwork by @allison_horst

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While in Graduate Schooldocumentating your researchwriting manuscriptsmaking slidescreating postersteaching classes with R26 / 67

While in Graduate Schooldocumentating your researchwriting manuscriptsmaking slidescreating postersteaching classes with R27 / 67

R Markdown Workshop by Emi Tanaka

✅ @combine_au R Markdown workshop done

All material here: https://t.co/QBScBVbrc8

I particularly liked showcasing the various #rmarkdown themes (pop-up is actually html and its reactive!)

I'll be giving two more R Markdown workshop:
📍19 Nov Melbourne
📍1 Dec Adelaide pic.twitter.com/0JRVL68u0n
— Emi Tanaka 🌾 (@statsgen) October 6, 2019

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Document Your R Package

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Write a Thesis/Book

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While in Graduate Schooldocumentating your researchwriting manuscriptsmaking slidescreating postersteaching classes with R31 / 67

Making Slides

Need to show `R cde snippets`?

got no time for formatting?

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Making Slides

Sneak peak of Part 1 of my Machine Learning 101 talk for @RLadiesSydney this Wednesday! 🤫 😉

KNN is a fast, simple, and effective #machinelearning algorithm for classifying data in #rstats! ✅

PS how amazing is @statsgen's Kunoichi theme for #xaringan!? pic.twitter.com/M2LyONW0vP
— Sarah Romanes (@sarah_romanes) October 7, 2018

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Slides with Countdown

⏰ Cuz it's been so heavily featured in @hadleywickham's Tidy-Tools workshop…
⏲ "{countdown}: countdown timer for R Markdown slides and HTML docs" by @grrrck https://t.co/KDIrYzHemT #rstats
☝️ pro tip: works really nicely in RStudio viewer pane for live coding! pic.twitter.com/Vg9BmffLlZ
— Mara Averick (@dataandme) October 15, 2019

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While in Graduate Schooldocumentating your researchwriting manuscriptsmaking slidescreating postersteaching classes with R35 / 67

Creating Posters

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Creating Posters

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Build a Dashboard

The #Fusarium graminearum species complex global database and mapping is taking shape! thanks to @rstudio #flexdashboard #crosstalk pic.twitter.com/ITxh5R5j7U
— Emerson Del Ponte (@edelponte) August 17, 2017

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Make Your Report Interactive!!

R Shiny + flexdashboard with code

🐱 github repository: https://t.co/NuIofPI8xa
✨ live app: https://t.co/KmelRXgEUW

💪 #getstrongeR #Rstats #shiny #rmarkdown pic.twitter.com/teOOoEFfdk
— Alessio Passalacqua (@alessiopassah2o) July 24, 2019

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While in Graduate Schooldocumentating your researchwriting manuscriptsmaking slidescreating postersteaching classes with R40 / 67

Teaching Classes with R

Discovery of the week: #rstats live code editor areas can be embedded in a slide deck using #learnr + #rmarkdown + #slidy affording powerful options to foster active learning. https://t.co/AwWgqRdbM8 pic.twitter.com/8ta4Pd3ef5
— James Balamuta (@axiomsofxyz) May 24, 2018

Demo!

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PhDone

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Time to Call Your Friends & Family

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LinkedIn Ranking System

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Applicant Tracking System

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Ready to Exit Graduate Schoolbuild a personal websiteget a resume46 / 67

Ready to Exit Graduate Schoolbuild a personal websiteget a resume47 / 67

Build a personal website

I have a personal academic website now! -> https://t.co/n7PYVMKuQl

It has my resume, my publications, talks, projects, and a blog. Even more, I already have two more ideas for posts.#AcademicTwitter #ECRchat #PhDchat #AcademicWebsite #blogdown pic.twitter.com/vAGXSGaLcV
— Dr Melina Vidoni (@melvidoni) November 16, 2018

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Write a Blog with Minimum Effort

If you’re an academic you need a website so that people can easily find info about your research and publications. Here’s how to make your own website for free in an under an hour using the blogdown package in #Rstats [THREAD] pic.twitter.com/9Lmo00Gkf0
— Dan Quintana (@dsquintana) May 7, 2018

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Build a Site under 20 Seconds

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Serve a Site

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Write a Blog

Demo!

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Why Write a Blog?

Should people stop writing blog posts and move to Medium? 🧐
Personal Blog Websites vs. Medium: Pros and Cons by @Brightspeaking https://t.co/VoXM5wWbzB
— Zhi Yang (@zhiiiyang) September 13, 2019

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Tutorials

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Protip from Alison Hills

An #rstats #blogdown file hierarchy cheatsheet:

├─ archetypes <- edit me!
├─ config.toml <- edit me!
├─ content <- edit me!
├─ data <- edit me!
├─ layouts <- edit me!
├─ public <- ignore me!
├─ static <- use me! (png/pdf/csv/xls)
├─ themes <- don't touch! pic.twitter.com/gvVA703Lwa
— Alison Hill (@apreshill) December 28, 2018

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Ready to Exit Graduate Schoolbuild a personal websiteget a resume56 / 67

Get a Resume

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Get a CV

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Always Start with Templates!

"Good artists copy; great artists steal" - Pablo Picasso pic.twitter.com/cGSQxxrZ9h
— History In Pictures (@HistoryInPics) June 24, 2014

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R Markdown Gallery

https://rmarkdown.rstudio.com/gallery.html

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R Markdown Family

https://github.com/pzhaonet/rmd

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Make It Fancy?

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Or Just Lazy?

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Do More with Less

Authoring Books with R Markdown

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Anything Between?

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Converting PPT Using Slidex

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Thanks! and Keep in touch

@zhiiiyang

zhiiiyang

zyang895@gmail.com

Slides created via the R package xaringan and the template from @malco_barrett

↑, ←, Pg Up, k	Go to previous slide
↓, →, Pg Dn, Space, j	Go to next slide
Home	Go to first slide
End	Go to last slide
Number + Return	Go to specific slide
b / m / f	Toggle blackout / mirrored / fullscreen mode
c	Clone slideshow
p	Toggle presenter mode
t	Restart the presentation timer
?, h	Toggle this help

How R Markdown helped me thrive in scientific research 📚 and advance my career development 👔

USC Biostatistics Seminar

Zhi Yang

2019-10-17

USC R Bootcamp

Santa Barbara R Users Group and R-Ladies

P01 Family

Happy Scientist Seminars

R Markdown Flyer

Antoine Lavoisier, Father of Modern Chemistry

Google Search Results

Marie's Drawing Examples

Marie's Painting Teacher

Introducing

Introducing

R Markdown

Guess which one is not made by R Markdown?

- A personal website

- A book

- A presentation

- An interactive website

- A dashboard

The answer is

None of them

They are all built on R Markdown 😂

Introduction to "downverse"

Don't worry

They are all just R Markdown!

Unifying Existent Things

Unifying Existent Things

Unifying Existent Things

Where do you position yourself?

Basics of .Rmd Files

YAML with ymlthis by Malcolm Barrett

Check out Malcolm's R Markdown Tutorial

While in Graduate School

documentating your research

writing manuscripts

making slides

creating posters

teaching classes with R

While in Graduate School

documentating your research

writing manuscripts

making slides

creating posters

teaching classes with R

R Markdown Workshop by Emi Tanaka

Document Your R Package

Write a Thesis/Book

While in Graduate School

documentating your research

writing manuscripts

making slides

creating posters

teaching classes with R

Making Slides

Need to show R cde snippets?

got no time for formatting?

Making Slides

Slides with Countdown

While in Graduate School

documentating your research

writing manuscripts

making slides

creating posters

teaching classes with R

Creating Posters

Creating Posters

Build a Dashboard

Make Your Report Interactive!!

While in Graduate School

documentating your research

writing manuscripts

making slides

creating posters

teaching classes with R

Teaching Classes with R

PhDone

Time to Call Your Friends & Family

YAML with `ymlthis` by Malcolm Barrett

Need to show `R cde snippets`?