Coding Club in Ghent and a visit to the Forest and Nature Lab in Ghent

At the beginning of March, something strange happened here in Edinburgh – a snow storm! A proper blizzard and what very much looked and felt like real snow, real enough to cause a bit of traveling havoc! On my way to Ghent, it was Beast from the East – a standard snow storm really, but quite unusual for for the rainy Edinburgh winter. On my way back to Edinburgh, of course, came Beast from the East number two – a smaller snow storm, but still enough to make the ground go white. Though I had storms accompanying me all along the way, my journeys all went safely and even more excitingly, they were full to the brim with science!

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Edinburgh snowscapes. Photo by Sandra Angers-Blondin

Coding Club workshop for the EVENET network

Coding Club is growing! It’s quite exciting, and one of the best parts is learning about similar initiatives around the world – the joys and challenges of coding can definitely bring people together. At the Ecology Across Borders conference in Ghent last December, we organised a workshop on sharing quantitative skills among ecologists – seeing so many people keen to only get better at R, but also share their knowledge with others, was definitely one of the conference highlights for me. So imagine how exciting it was when I got the invite to go back to Ghent to lead a Coding Club workshop for EVENET – a network of ecologists from different institutions around Belgium.

The theme of the workshop was developing an efficient and reproducible workflow, so we squeezed in as much data manipulation, visualisation, modelling and then reporting using Markdown into a day-long workshop. If you’re keen to find out about the tidyverse collection of packages and how you can use them to streamline your research, you can check out the tutorial online:

GitHub, Tidyverse and Markdown – efficient data manipulation and visualisation and reproducible workflows

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Red deer populations across space and time – check out the tutorial here https://ourcodingclub.github.io/2018/03/06/tidyverse.html

The Forest and Nature Lab at Ghent University

I’ve been dreaming of visiting a research group – it sounded like something I would really enjoy! I love exploring university campuses and research buildings, checking out the posters on the walls, “feeling the science in the air”, learning about new research and getting to hear different perspectives on my work as well. Visiting the Forest and Nature Lab at Ghent University was indeed a great experience – I shared the preliminary findings of one of my PhD chapters for the first time (how does forest cover influence biodiversity trends?), I learned about a lot of cool forest research and of course, I find land-use history fascinating, so I was very intrigued by the post-agricultural forests in Flanders and the effect of time since last agricultural activity.

You can check out some of the papers below to learn more about the effects of land-use legacy on forest communities:

Hermy & Verheyen (2007) Legacies of the past in the present-day forest biodiversity: a review of past land-use effects on forest plant species composition and diversity, Ecological Research.

Perring et al. (2018) Global environmental change effects on plant community composition trajectories depend upon management legacies, Global Change Biology.

A particularly inspirational moment was getting to walk around the research forest near Gontrode. A research forest! As much as I like coding away with a cup of tea, it’s nice to complement that with seeing real-life plants and animals. I think strong academic communities are so valuable, and in Ghent, I got a small glimpse of such a community! We are all busy and at any point in time, we could be doing many different things. I will definitely remember the feeling of walking around the research forests with a group of PhD students, each showing me some of their experiments and sharing their science.

I had lots of time for daydreaming on my way back to Edinburgh, and I have to say, 12 hour delays sure feel more poetic when 1) you have code running in the background, so you don’t feel totally inefficient, and 2) you are dreaming of future research directions and field research stations!

One year of Coding Club

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This November, we are celebrating Coding Club’s first birthday – one year full of workshops, lots of code and many moments of joy as we finally figure out how to get our code to work and improve our quantitative skills together! It’s been such an exciting year, and we are thrilled to see many new faces joining us, as well as familiar faces returning workshop after workshop. We have developed 19 tutorials for our website on topics such as mixed effects models, using Markdown, and following a coding etiquette. We went to Aberdeen to co-lead a workshop with Francesca from the University of Aberdeen, and we also made it to the University of Edinburgh Impact awards!

But most of all, we are lucky to have many keen people, from different career stages and different disciplines, join us as we get better at coding by either coming to our workshops in Edinburgh or completing the tutorials online! It’s wonderful to have a supportive community where we can ask all of the R questions that pop into our minds, a place where we can all be learners and teachers, and help each other learn how to run models, make beautiful graphs and more!

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A map of the countries from where people visit our website!

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PhD begins, Coding Club returns

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After a field season in Northern Scotland and a field season in the Arctic, I am back in Edinburgh to delve into the world of biodiversity change and its drivers. I have started a PhD! My project aims to quantify the effects of land use change on global and local patterns of species richness, abundance and composition, and develop a computational framework to facilitate answering ecological questions using big data and global synthesis of long-term observations. In particular, I will investigate whether: 1) changes in species richness, abundance and composition can be attributed to land use change over recent decades, 2) land intensification and land abandonment are both causing species homogenisation, and 3) biodiversity change processes are more pronounced in areas of high land use change rates.

We have also led the first Coding Club workshop – exciting to see Coding Club back for a second year of coding and statistics inspiration and knowledge sharing! With Coding Club, we want to create a friendly environment in which we can learn about quantitative analysis together. Coding Club is for everyone – all students and staff are welcome to come along and participate, regardless of their current R knowledge. We were thrilled to see people returning to our workshops, as well as many new faces – with new students come new ideas, new research projects and new data presents to open – ah, imagine the graphs!

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The Coding Club cookies, featuring some pipes we piped!

Coding Club will soon celebrate its first birthday – in one year there have been many lines of code, majority of them working, many workshops, posters and emails to spread the word. Every week there is a little pocket of R magic in our university building, and with over 50 people coming to our two workshops last week, the pocket doesn’t feel so little anymore! We have ambitious plans for developing Coding Club further, sharing what we have learned so far, and forming new collaborations. You can check out our tutorials on efficient data manipulation, data visualisation, mixed effects models and more on the Coding Club website. We are also very happy to have other people use our tutorials to deliver Coding Club workshops around the world, and would also love to have more people contribute online tutorials. If you are interested, you can get in touch with us at ourcodingclub (at) gmail.com.

A particularly great aspect of Coding Club’s first week back was that the workshops were lead by Sam and Claudia – two of Team Shrub’s new honours students. We hope to spread inspiration and motivation to learn through our workshops, and we were definitely inspired by Sam and Claudia’s great work! Coding can be scary and intimidating, but among the occasional fear and many R errors, we are glad that there is a place where we can brave the errors together and get better at finding the answers to our research questions.

 

Science, outreach and coding galore in April

This April has been full to the brim with everything I love about science and academia – an art-science collaboration to give science outreach a creative spin, a conference to learn about cool research and meet new people, a coding workshop to spread our love for efficient coding practices and start new collaborations, a drone symposium to learn about the role of drone technology in advancing ecology, and finally fieldwork across beautiful woodlands in Scotland.

Team Shrub at the Edinburgh Science Festival

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I was very happy to help with the awesome outreach events Team Shrub organised for the Edinburgh International Science Festival. A great collaboration between scientists, science communicators (James Howie and the ASCUS Lab) and artists (Simon Sloan and Archie Crofton) resulted in a wonderful collection of photographs, data visualisations and fieldwork artifacts under the theme of “Arctic from Above” – Team Shrub’s first exhibition! You can still check out the exhibition in the Summerhall War Memorial Library before it closes on the 12th May!

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Coding Club progress so far

2016 has been a great year for dreams coming true – one of them being getting the chance to teach! Back in November 2016, together with a great team of graduates, PhD and undergraduate students, and researchers, we launched Coding Club. Coding Club is a peer-to-peer learning community aiming to develop quantitative skills, in particular fluency in statistics and programming. Our goal is to turn statistics anxiety and code fear into motivation and inspiration, and we are working towards creating a supportive learning environment. Since it’s the start of a new year, and it is way too cold outside, I thought this would be a good time to reflect on our work so far.

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