This document introduces Shiny apps and R packages for animal science created by Youngjun Na. It describes the adatalab project which contains packages for analyzing animal nutrition data and modeling. These include packages for dairy cattle, beef cattle, goats, and feeding information. It also introduces two Shiny apps, DairyLab and HanwooLab, for processing, visualizing and modeling dairy and beef cattle performance and productivity data. The apps are deployed on Github pages through embedding an iframe.

1. Shiny for animal science:
project adatalab
Youngjun Na, PhD
Department of animal science and technology
Konkuk University
Email: ruminoreticulum@gmail.com

2. library(youngjunna)
# Information ----
Name <- ”Youngjun Na”
Family <- data.frame(
family = c(“wife”, “son”, “daughter”),
name = c(“Juhee”, “Sangwoo”, “Haon”)
)
# Link ----
[Github](“https://github.com/YoungjunNa”)
[TechnicalBlog](“https://youngjunna.github.io”)

3. # Research ----
Category <- “Animal science”
Category$major <- “Ruminant nutrition 🐄🐂🐏🦌”
Research <- lapply(AnimalScience, function(x) DataScience(x) * R(x))
# Summary ----
Animal %>%
Ruminant(for = c(“dairy”, “beef”, “environment”)) %>%
Nutrition(for = c(“productivity”, “behavior”, “welfare”)) %>%
Modeling(method = “ML”) %>%
R(for = c(“meta-analysis”, “data wrangling”, “visualization”, “Shiny”))

4. I’m an animal scientist
# Input
Nutrients
Environment
Genetics
# Output
Productivity
(milk, meat, reproduce)
Behavior
(rumination, moving)
Environment
(Greenhouse gas, manure)
Animal welfare
# Animal model

5. 엄마가 상상하는 나의 모습

6. 실제 나의 모습

7. R packages for Animal science:
Project animal data lab. (adatalab)

8. 작은 모델 만들기 프로젝트
준비물:
§ Data
§ Computer (local PC or cloud)
§ 분석을 쉽게 만들어줄 tool

9. Project animal data lab. (adatalab)
§ https://github.com/adatalab
§ 동물 영양 연구 분석용 R package를 제작
사료 요구량 설정/결과분석 사료배합

10. Package: feed
§ https://github.com/adatalab/feed
§ Imports: rvest, ggplot2, dplyr
§ feed_list()
§ feed_search()
§ feed_info()
§ feed_compare()

11. Package: hanwoo
§ https://github.com/adatalab/hanwoo
§ Imports: XML, dplyr
§ hanwoo_info()
§ hanwoo_bull()
§ Functions for import the nutrient requirements of Hanwoo.

12. Package: dairyCattle
§ https://github.com/adatalab/dairyCattle
§ Imports: ggplot2, dplyr, janitor, timevis
§ mun_mp()
§ parturition()
https://youngjunna.github.io/adatalab/partur
ition
§ Functions for import the nutrient
requirements of dairy cattle.

13. Package: CH4goat
§ https://github.com/adatalab/CH4goat
§ Imports: neuralnet
§ The package contains two black-box model derived from the in vivo enteric
methane dataset using respiration-metabolism chamber system.
§ neuralnet::compute(model1, your_data)

14. Workflow for animal modeling
# Input
Nutrients
Environment
Genetics
# Output
Productivity
(milk, meat, reproduce)
Behavior
(rumination, moving)
Environment
(Greenhouse gas, manure)
Animal welfare
# Animal model

15. Shiny apps for Animal science

16. DairyLab
# Input
Cow performance test
(monthly)
# DairyLab
Data processing/cleansing
Visualization
Clustering
Modeling
# Output
Productivity
Animal welfare
Farm management
dairyCattle::read_cattle()
https://adatalab.github.io/dairylab-pro/

17. DairyLab
§ flexdashboard 패키지 기반(https://rmarkdown.rstudio.com/flexdashboard/index.html)
§ runtime: shiny

18. DairyLab
§ render*() 만 써도 대부분 flexdashboard에 적용 가능 == without *Output()

19. DairyLab
§ shinyApp() 의 응용

20. HanwooLab
# Input
Carcass info.
Genetic info.
hanwoo::hanwoo_info(“002123456789”)
+
hanwoo::hanwoo_bull(“1080”)
+
Rselenium + rvest
# HanwooLab
Data processing/cleansing
Modeling
Clustering
# Output
Productivity
Animal welfare
Farm management
https://adatalab.github.io/hanwoolab-example/ id: user pw: pass

21. HanwooLab
§ shinydashboard 패키지 기반(https://rstudio.github.io/shinydashboard/index.html)
§ shinyauthr 패키지를 통해 로그인 기능 구현(https://github.com/PaulC91/shinyauthr)

22. shinyauthr을 이용한 로그인 기능 구현(global)

23. shinyauthr을 이용한 로그인 기능 구현(ui)

24. shinyauthr을 이용한 로그인 기능 구현(server)

25. Github page + Shiny app

26. Github page에 shiny app 연결하기
§ Jekyll 기준
§ html 파일을 만들고 -> permalink 추가 -> iframe 적용

27. Github page에 shiny app 연결하기
---
permalink: /dairylab-pro/
---
<!DOCTYPE html>
<head>
</head>
<body>
<p>
<iframe src="https://youngjunna.shinyapps.io/dairylab-pro/" style="display:block; width:100vw; height: 100vh; border: 0">
It looks like your browser doesn't support iframes.
</iframe>
</p>
</body>

28. Thank you
Q&A