Adventures in Open Code & Data

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# Adventures in Open Code & Data
## why I love hackathons!
### Anna Krystalli @annakrystalli
### 2019-10-08

---

# 👋 Hello

### me: **Dr Anna Krystalli**

- **Research Software Engineer**, _University of Sheffield_
    + twitter **@annakrystalli**
    + github **@annakrystalli**
    + email **a.krystalli[at]sheffield.ac.uk**
    
- **Editor [rOpenSci](http://onboarding.ropensci.org/)**

- **Co-organiser: [Sheffield R Users group](https://www.meetup.com/SheffieldR-Sheffield-R-Users-Group/)**

### slides: [**bit.ly/bes_hack19**](http://bit.ly/bes_hack19)

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# I love hackathons!

# 🤔

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# I love hackathons!

# 💡

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# Why I love hackathons!  ❤️

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# Why I love opensource! ❤️

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--
.pull-left[

## **Woah, It's evolution...**
]

.pull-right[

![](https://media1.giphy.com/media/PA6ms60GXLPdm/giphy.gif?cid=790b76112b728da8d598df4643af00506237c35986b47f54&rid=giphy.gif)
]

---
> #### [**_Macroecological and macroevolutionary patterns emerge in the universe of GNU/Linux operating systems_**](https://doi.org/10.1111/ecog.03424)
> doi:10.1111/ecog.03424
 
.pull-left[

![](assets/ecography_gnu.png)
]

.pull-right[

<img src="assets/ecography_gnu_fig4.jpg" height=430px>
]

---
> #### [**_Macroecological and macroevolutionary patterns emerge in the universe of GNU/Linux operating systems_**](https://doi.org/10.1111/ecog.03424)
> doi:10.1111/ecog.03424

.center[
<img src="assets/ecography_gnu_fig5.jpg" height=470px>
]

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# Storytime: 
## the story of firefox

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background-image: url("assets/moz_00_early_internet.png")

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background-image: url("assets/moz_01_netscape.png")

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background-image: url("assets/moz_02_radiation.png")
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background-image: url("assets/moz_03_community.png")
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background-image: url("assets/moz_04_firefox.png")
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background-image: url("assets/moz_05_firefox.png")
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background-image: url("assets/moz_06_break_monopoly.png")

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# Storytime: 
## the story of gapminder
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background-image: url("assets/hanslibdata.png")
background-size: cover
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# **gapminder.org: 2006**

### .bg-white-transp[[liberating stories from data](https://youtu.be/hVimVzgtD6w?t=15m3s)]

---
background-image: url("https://media2.giphy.com/media/eCwAEs05phtK/giphy.gif?cid=790b7611273eba8f4372b56af02d1757756e030aa0d55970&rid=giphy.gif")
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# **Gapminder today**

```r
library(ggplot2)

p <- ggplot(gapminder::gapminder, aes(gdpPercap, lifeExp, size = pop, color = continent, frame = year)) +
 geom_point() + scale_x_log10() + theme_bw()
```

```r
plotly::ggplotly(p)
```

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---
## Collaboration ==

.pull-left[

- ### **Organisation**
![](assets/os_organisation2.png)
]

.pull-right[
![](assets/os_organisation1.png)
]
---

## Collaboration ==

.pull-left[

- ### **Organisation**

- ### **Communication**
 ![](assets/os_communication1.png)
]

.pull-right[

![](assets/os_communication2.png)
]
---
## Collaboration ==

.pull-left[

- ### **Organisation**

- ### **Communication**

- ### **Vulnerability**

]

.pull-right[
![](https://media1.tenor.com/images/28614e18ac6984da6d76f93a7df93fa7/tenor.gif?itemid=5653735)
]
---
## Collaboration ==

.pull-left[

- ### **Organisation**

- ### **Communication**

- ### **Vulnerability**

- ### **Respect & attribution**
]

.pull-right[
![](assets/os_attribution.png)
]
---
background-image: url("https://media2.giphy.com/media/eCwAEs05phtK/giphy.gif?cid=790b7611273eba8f4372b56af02d1757756e030aa0d55970&rid=giphy.gif")
class: middle, center, inverse
# Why I love open science! ❤️

---
background-image: url("https://upload.wikimedia.org/wikipedia/commons/5/5d/The_history_of_the_Royal_Society_of_London%2C_for_the_improving_of_natural_knowledge_Fleuron_T131281-9.png")
class: inverse

# Open science is old

.pull-right[![](https://upload.wikimedia.org/wikipedia/commons/thumb/4/42/Philosophical_Transactions_Volume_1_frontispiece.jpg/1024px-Philosophical_Transactions_Volume_1_frontispiece.jpg)]

---
class: middle, center

## A lot has changed since the 1600s

---
background-image: url("assets/problem-infographic.jpg")

---
background-image: url("https://media2.giphy.com/media/CTX0ivSQbI78A/giphy.gif?cid=790b76111ee5344292dfa478efa904ce0232b2b62f73586d&rid=giphy.gif")

---
## **The internet was built for open science**

![](assets/www.jpg)
---
## **The internet was built for open science**

---
background-image: url("https://media3.giphy.com/media/j5KUmGQGlQRlU2VQWY/giphy.gif?cid=790b76114ebae412d67568afd4e09f7cd41b14ccef624cdf&rid=giphy.gif")

### **Ooops, that's embarassing!**

.pull-left[

![](assets/reproducibility-graphic-online1.jpeg)
]

.pull-right[
![](assets/reproducibility-graphic-online4.jpg)
]

---
background-image: url("https://media1.giphy.com/media/BWTZOE4vnj3gs/giphy.gif?cid=790b761105c665c045cf431bde7e8419e02f3f6314ac0d32&rid=giphy.gif")
class: inverse

### **Open Science 2.0 to the rescue**

---
background-image: url("assets/ro_community_fade.jpg")
background-size: cover
class: split-two, inverse

# rOpenSci

.pull-left[

![](assets/cropped.svg)

.center[

![](https://d33wubrfki0l68.cloudfront.net/aa488a0570cdf44d956942df324bb26cba77c4a2/3919e/img/icon_short_white.svg)
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> ### Transforming science through open data and software

]

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# Space for:

- ## **taking time out to work on a fresh challenge**
- ## **learning from and getting more done by banding together**

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## **NBN** Sheffield R Users Group hack

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# Storytime: 
## the story of dataspice

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# [rOpenSci Unconf 18](http://unconf18.ropensci.org/)
#### May 21 - 22, 2018. Seattle

![](assets/seattle.svg)
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# rOpenSci Unconf mission

> bringing together scientists, developers, and open data enthusiasts from academia, industry, government, and non-profits to get together for a few days and hack on various projects.

#### Ideas for projects submitted through GitHub [**issues**](https://github.com/ropensci/unconf18/issues) in the [**runconf18** repo](https://github.com/ropensci/unconf18)

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## issue [#72](https://github.com/ropensci/unconf18/issues/72) 🙋

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# Metadata team!
------------

Luckily, a **whole bunch of other awesome folks** were also thinking about these topics and interested in working on them! 🤩

(in alphabetical order):

-   [Carl Boettiger](https://github.com/cboettig)
-   [Scott Chamberlain](https://github.com/sckott)
-   [Auriel Fournier](https://github.com/aurielfournier): #[41](https://github.com/ropensci/unconf18/issues/41)
-   [Kelly Hondula](https://github.com/khondula)
-   [Anna Krystalli](https://github.com/annakrystalli)
-   [Bryce Mecum](https://github.com/amoeba)
-   [Maëlle Salmon](https://github.com/maelle)
-   [Kate Webbink](https://github.com/magpiedin): #[52](https://github.com/ropensci/unconf18/issues/52)
-   [Kara Woo](https://github.com/karawoo): #[68](https://github.com/ropensci/unconf18/issues/68)

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### rOpenSciLabs R 📦

> # [**`dataspice`**](https://github.com/ropenscilabs/dataspice) 
> makes it easier for researchers to **create basic, lightweight and concise metadata files for their datasets**.

### Features

- Metadata fields are **based on [schema.org](http://schema.org/Dataset)**

--
- Metadata **collected in `csv` files**

- Helper functions and shinyapps to **extract and edit metadata files**.

- Ability to produce **structured json-ld metadata file** & dataset **README webpage**.

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## `dataspice` workflow

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## `edit_attributes()`

![](assets/prepped_attr.png)

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## `build_site()`
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.pull-right[
<img src="assets/index_webshot.png" width="100%">
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### **[hacktoberfest.digitalocean.com](https://hacktoberfest.digitalocean.com/)**

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background-image: url("https://media2.giphy.com/media/eCwAEs05phtK/giphy.gif?cid=790b7611273eba8f4372b56af02d1757756e030aa0d55970&rid=giphy.gif")
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# Happy Hacking

## slides: [**bit.ly/bes_hack19**](http://bit.ly/bes_hack19)

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# Acknowledgements

- slides made using 📦 [xaringan](https://github.com/yihui/xaringan) & [xaringanthemer](https://github.com/gadenbuie/xaringanthemer)

- backround-slide: Image by <a href="https://pixabay.com/users/TheDigitalArtist-202249/?utm_source=link-attribution&amp;utm_medium=referral&amp;utm_campaign=image&amp;utm_content=3357642">Pete Linforth</a> from <a href="https://pixabay.com/?utm_source=link-attribution&amp;utm_medium=referral&amp;utm_campaign=image&amp;utm_content=3357642">Pixabay</a>

- slide background no. 12-18: Mozilla and Working Open <https://www.youtube.com/watch?v=quKdaqlR_9w>
- slide background no. 20: The best stats you've ever seen | Hans Rosling <https://youtu.be/hVimVzgtD6w?t=15m3s>
- slide background no. 29: Jill Cirasella. Graphics: Les Larue. License: Creative Commons: Attribution, Non-Commercial