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Kickoff 2016, Rm 231 Dept of Biochemistry, 18 February 2016, 03:30:00 PM
The first meeting for 2016 where we'll be planning for year including future times and locations.
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5x5 Lightning SYSKA - March, Rm 319 Dept of Biochemistry, 3 March 2016, 03:30:00 PM
5 minute lightning talks on 5 different topics by 5 different presenters on stuff you should know about
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Git/Github Intro, Rm 319 Dept of Biochemistry, 17 March 2016, 03:30:00 PM
Interactive intro session for git/github use (bring a laptop)
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How Do I..., Rm 319 Dept of Biochemistry, 31 March 2016, 03:30:00 PM
Interactive session to get help on all those how do I... questions you might have (bring a laptop if you want)
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SYSKA (Tom K) Handling Large data in R, Rm 319 Dept of Biochemistry, 14 April 2016, 03:00:00 PM
An introduction to the data.table package and other approaches to large files
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SYSKA - James, Rm 319 Dept of Biochemistry, 28 April 2016, 03:30:00 PM
A SYSKA from James about all the cool things he can think of
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Intro to R, Rm 319 Dept of Biochemistry, 12 May 2016, 03:30:00 PM
First session, in a series, covering the start of the software carpentry R programming materials
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Intro to R - part 2, Rm 319 Dept of Biochemistry, 12 May 2016, 03:30:00 PM
Second session, in a series, covering the start of the software carpentry R programming materials
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June 5x5 lightning SYSKA, Rm 319 Dept of Biochemistry, 9 June 2016, 11:00:00 AM
5 speakers, 5 minutes each on new and interesting topics
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R functions, Rm 319 Dept of Biochemistry, 9 June 2016, 03:30:00 PM
How to create functions in R
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R Markdown, Rm 319 Dept of Biochemistry, 23 June 2016, 11:00:00 AM
How to create reproducible documents in R using R markdown
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R functions and plots, Rm 319 Dept of Biochemistry, 5 July 2016, 11:00:00 AM
Creating functions and intro to plotting in R
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R - making an application, Marples Room Dept of Zoology, 19 July 2016, 11:00:00 AM
Using functions to create an appliaction in shiny
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R - twitter analysis, Rm 319 Dept of Biochemistry, 2 August 2016, 11:00:00 AM
Using R to analyse social media data
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5 x 5 Lightning SYSKA, Rm 319 Dept of Biochemistry, 16 August 2016, 11:00:00 AM
5 rounds of 5 minute presentations on computational tips and tricks
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R Intro to making packages, Rm 319 Dept of Biochemistry, 30 August 2016, 11:00:00 AM
Intro lesson on turning functions into your own R packages
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Fun with James, Rm 319 Dept of Biochemistry, 13 September 2016, 11:00:00 AM
It's James, with a big dose of SYSKA
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Hacky Hour and general question time, Rm 319 Dept of Biochemistry, 11 October 2016, 11:00:00 AM
A time to crack out some code with others
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ChemmineR Intro, Rm 319 Dept of Biochemistry, 25 October 2016, 11:00:00 AM
Basic introduction to the ChemmineR "Cheminformatics Toolkit" package for R
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Done Software/Data Carpentry... now what?, Rm 319 Dept of Biochemistry, 8 November 2016, 11:00:00 AM
Want to know more, but not sure where to start? come along
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Scaffold cluster analysis and shiny apps, Rm 319 Dept of Biochemistry, 22 November 2016, 11:00:00 AM
Sam Norton from Microbiology is going to run us through some of the clustering analysis he does
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Continuing Discussion, Rm 319 Dept of Biochemistry, 6 December 2016, 11:00:00 AM
Final end of year session
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5x5 Lightning SYSKA, Rm 319 Dept of Biochemistry, 14 February 2017, 11:00:00 AM
5 minute lightning talks on 5 different topics by 5 different presenters on stuff you should know about
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rOpenSci, Rm 319 Dept of Biochemistry, 28 February 2017, 11:00:00 AM
Discussion and introduction to rOpenSci
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Intro to FASTA manipulation and AWK, Rm 312 Hercus Building (cnr Hanover and Gt King St), 14 March 2017, 11:00:00 AM
Elizabeth and Matt will be presenting on manipulation of FASTA files and general files using AWK
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Shiny apps in R, Rm 319 Dept of Biochemistry, 28 March 2017, 11:00:00 AM
Ruth will be taking us through some of the things she has discovered while making a shiny app
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Introduction to LaTeX, Rm 319 Dept of Biochemistry, 11 April 2017, 11:00:00 AM
Riku will give and introduction to using LaTex to create documents - namely thesis
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5x5 Lightning SYSKA, Rm 319 Dept of Biochemistry, 9 May 2017, 11:00:00 AM
5 minute lightning talks on 5 different topics by 5 different presenters on stuff you should know about
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SnapView, Rm 319 Dept of Biochemistry, 6 June 2017, 11:00:00 AM
Cushla is going to introduce SnapView
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Summaries, Missing, and Shadows, Rm 319 Dept of Biochemistry, 20 June 2017, 11:00:00 AM
Murray is going to run through a few R packages for data summarisation and dealing with missing data
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Hacky Hour, Rm 319 Dept of Biochemistry, 27 June 2017, 11:00:00 AM
Time to come, hang out, talk, and write code
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Hacky Hour, Rm 319 Dept of Biochemistry, 11 July 2017, 11:00:00 AM
Time to come, hang out, talk, and write code
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R ggplot, Rm 319 Dept of Biochemistry, 18 July 2017, 11:00:00 AM
some ggplot tricks from Matt
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Hacky Hour, Rm 319 Dept of Biochemistry, 25 July 2017, 11:00:00 AM
Time to come, hang out, talk, and write code
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Rmarkdown, Rm 319 Dept of Biochemistry, 8 August 2017, 11:00:00 AM
Rmarkdown with Murray
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Unstructured SYSKA, Rm 319 Dept of Biochemistry, 5 September 2017, 11:00:00 AM
A SYSKA event that requires zero prep but hopefully some interesting stuff you should know about
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Circos plots, Rm 319 Dept of Biochemistry, 17 October 2017, 11:00:00 AM
Denise is going to run a session on creating visualisations with Circos
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Bash one hit wonders, Rm 319 Dept of Biochemistry, 31 October 2017, 11:00:00 AM
Murray will lead a session discussing useful bash oneliners to survive life on the commandline
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Too many dimensions - dimension reduction techniques with Mik, Rm 319 Dept of Biochemistry, 14 November 2017, 11:00:00 AM
PCA (principal components analysis), SVD (singular value decomposition) and MDS (multi-dimensional scaling) - how they work (and how they are basically all the same thing under certain situations), how we use them for dimension reduction (including for ancestry/relatedness correction), and how we can use the rsvd package to calculate the SVD really fast.
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Too many dimensions - dimension reduction techniques - part 2, Rm 319 Dept of Biochemistry, 12 December 2017, 11:00:00 AM
PCA (principal components analysis), SVD (singular value decomposition) and MDS (multi-dimensional scaling) - how they work (and how they are basically all the same thing under certain situations), how we use them for dimension reduction (including for ancestry/relatedness correction), and how we can use the rsvd package to calculate the SVD really fast.
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Getting started with RStudio and Git, Rm 231 Dept of Biochemistry, 20 February 2018, 11:00:00 AM
Our first Otago Study Group session of the year aims to get everyone up and running with RStudio and GitHub integration. Please see the full description of the lesson for setup details.
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Data analysis with google sheets and R, Rm 231 Dept of Biochemistry, 6 March 2018, 11:00:00 AM
A walkthough on how googlesheets can be incorporated into a data analysis workflow in R
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How to make an R package in 20 min (over 50 min), Rm 231 Dept of Biochemistry, 20 March 2018, 11:00:00 AM
Moving from copy pasting code between documents to a reproducible and maintainable workflow
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What is modern data analysis?, Rm 319 Dept of Biochemistry, 12 April 2018, 11:00:00 AM
Machine learning has arguably supplanted classical statistics in many applied situations, and yet is hardly taught in many institutions. This talk is an introduction to modern approaches to data analysis, for people who still think p < 0.05 is the goal of research. Although several new methods will be covered, the talk is not a how-to or selling of those methods, rather an illustration to an approach to quantitative research that is seldom demonstrated or taught.
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Keeping up with the Dr Joneses - New data management practices that you should know about, Rm 319 Dept of Biochemistry, 26 April 2018, 11:00:00 AM
The research data landscape is evolving. International publishers and funders are now mandating for best practice in data planning, description, storage, and sharing. Don't be caught out. By attending this Otago Study Group session, being facilitated by the Research Support Unit and Subject Librarian Justin Farquhar, you will increase your knowledge of best practice data lifecycle approaches.
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Electronic Lab Notebook using Markdown, GitHub and Hugo - a small step towards Open Science, Rm 319 Dept of Biochemistry, 10 May 2018, 11:00:00 AM
Tired of re-explaining what you've been doing for the last 2 months to your supervisor(s)? Can't be bothered to keep your physical lab notebook clean and organised? Want to easily share your newest methods and results with your colleagues/students?
Look no further - In this session, we will present a couple of ways one can implement a shareable open/closed Electronic Lab Notebook using Markdown, Git/GitHub and Hugo. This brief presentation is aimed to open up a discussion on how we can improve reproducibility of our research, better communicate our work with others, and try to ease the day-to-day mess students and/or supervisors have to put up with.
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Tips and Tricks, Rm 319 Dept of Biochemistry, 24 May 2018, 11:00:00 AM
This is going to be a SYSKA session for people to talk and share about software they use and some tips and tricks they use with it
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Markdown Madness, Rm 319 Dept of Biochemistry, 7 June 2018, 11:00:00 AM
A SYSKA session on (R)markdown with a couple 5-10 min slots
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5 min SYSKAs, Rm 319 Dept of Biochemistry, 21 June 2018, 11:00:00 AM
A SYSKA session with 5 min slots to share with the group something they should know about
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When do I start functioning?, Rm 319 Dept of Biochemistry, 19 July 2018, 11:00:00 AM
Do you find yourself copy pasting the same code and think there must be a better way? There is, come along to find out some tips
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R for data science intro, Rm 319 Dept of Biochemistry, 16 August 2018, 11:00:00 AM
Working through the first three chapters of http://r4ds.had.co.nz/index.html
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R for data science chap 3 continued, Rm 319 Dept of Biochemistry, 30 August 2018, 11:00:00 AM
Working through chapter 3 from http://r4ds.had.co.nz/data-visualisation.html#common-problems
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R for data science chap 3 continued (repeated), Rm 319 Dept of Biochemistry, 6 September 2018, 11:00:00 AM
Working through chapter 3 from http://r4ds.had.co.nz/data-visualisation.html#common-problems
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R for data science chap 4 and start of chapter 5, Rm 319 Dept of Biochemistry, 20 September 2018, 11:00:00 AM
Working through chapter 4 on workflow basics (http://r4ds.had.co.nz/workflow-basics.html) and start of chapter 5 on data transformation (http://r4ds.had.co.nz/transform.html)
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R for data science continuation of chapter 5, Rm 319 Dept of Biochemistry, 4 October 2018, 11:00:00 AM
The remainder of chapter 5 on data transformation from the mutate section (http://r4ds.had.co.nz/transform.html#add-new-variables-with-mutate) onwards
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R for data science chapter 6 and start of chapter 7, Rm 319 Dept of Biochemistry, 18 October 2018, 11:00:00 AM
Chapter 6 on workflow:scripts (http://r4ds.had.co.nz/workflow-scripts.html) and starting chapter 7 on exploratory data analysis (http://r4ds.had.co.nz/exploratory-data-analysis.html)
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R for data science chapter 7 continued, Rm 319 Dept of Biochemistry, 1 November 2018, 11:00:00 AM
Continuing on with chapter 7 on exploratory data analysis (http://r4ds.had.co.nz/exploratory-data-analysis.html) picking up from Missing values
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R for data science chapter 7 continued, Rm 319 Dept of Biochemistry, 15 November 2018, 11:00:00 AM
Continuing on with chapter 7 on exploratory data analysis (http://r4ds.had.co.nz/exploratory-data-analysis.html) picking up from 7.5.2 - Two categorical variables
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R for data science: Projects and Wrangling - chapters 8 and 9, and maybe 10, Rm 319 Dept of Biochemistry, 29 November 2018, 11:00:00 AM
Rstudio projects (https://r4ds.had.co.nz/workflow-projects.html) and starting on wrangling (https://r4ds.had.co.nz/wrangle-intro.html) and maybe getting to tibbles (https://r4ds.had.co.nz/tibbles.html)
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Practicing version control with Git, Rm 319 Dept of Biochemistry, 15 August 2019, 01:00:00 PM
This session (and next) will be 2 hours in length and provide an opportunity to setup and configure git, cover how/when to use version control and give you an opporunity to further develop your Git skills. Bring a laptop
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Practicing version control with Git (2), Rm 319 Dept of Biochemistry, 22 August 2019, 01:00:00 PM
This session will be 2 hours in length and provide an opportunity to practice collaborating using Git. Bring a laptop
