News:PART FUNDED SCHOLARSHIPS - Coding, data management, and Shiny applications using RStudio for evolutionary biologists and ecologists - May 2017

Question

[oliverhooker]

PR STATISTICS ARE PLEASED TO ANNOUNCE THAT THROUGH THEIR FUNDING SCHEME THEY CAN OFFER 5 PART-FUNDED SCHOLARSHIPS FOR OUR UP-COMING COURSE

"Coding, data management, and Shiny applications using RStudio for evolutionary biologists and ecologists (CDSR01)"

SCHOLARSHIPS CONTRIBUTE TOWARDS TUITION FEES AND ACCOMMODATION WITH 5 'ALL INCLUSIVE PLACES' AVAILABLE AT £490.00 (Fees have been subsidised by 35% from £755.00).

Applications should be sent to [e-mail] and contain the following.

1. Full name
2. Institute name
3. PhD subject title or Post doc research questions
4. Do you hold a funded position
5. 150 words why this course would be relevant to your research or how it would help.

Application deadline is Tuesday 17th April 2017

We still have 'normal' places available for anyone else interested.

Full course details are given below

http://www.prstatistics.com/course/coding-data-management-and-shiny-applications-using-rstudio-for-evolutionary-biologists-and-ecologists-cdsr01/

This course will run from 15th - 19th May at SCENE field station, Scotland.

The course will introduce programming logic using the R syntax. The participants will be able to solve problems involving heterogeneous biological datasets and the combined use of different statistical packages, so the advantages of learning programming skills can be demonstrated. The RMarkdown syntax will be used to illustrate the advantages of literate programming and the possibilities of code sharing and archiving. In the sequence, participants will learn how to design relational databases (RDB) which can be used to manage and analyse large biological datasets. They will learn the basics of the SQL language and how to use it with R with the package {RMySQL}.

To finalise, they will use the Shiny tool (R Studio) to build interactive applications to analyse and display data depending on user inputs. Throughout the course we will emphasise data, code and analyses best practices that could foster reproducibility and transparency in science, and the long-term availability of scientific data. At the end of the course the participants are expected to be able to develop small, tailored applications, to read and analyse datasets using a variety of statistics tools.

Monday 15th

Module 1: Programming Logic
R syntax (Variable types - operators - conditionals - loops - writing functions)
Programming and commenting code with RMarkdown

Tuesday 16th

Module 2: Data structures
R syntax (arrays, lists, data frames, matrices)
Data wrangling with {dplyr} and {tidyr}; the {ff} package and data tables for large datasets (e.g. transcriptomics; whole-genome data)
Best practices of data acquisition, organization and storage

Wednesday 17th

Module 3: Relational databases
Introduction to the SQL language and MySQL (open-source RDB freeware)
Accessing and analysing large datasets using the package {RMySQL}
As an example, we will combine DNA sequence datasets with IUCN Red List data illustrate the use of RDB to biological datasets.

Thursday 18th

Module 4: Introduction to Shiny (R Studio)
Shiny - Server and user interface commands
As an example we will use Shiny to develop a small application where users can select different species and genes and run/visualize phylogenetic trees using {ape} running in the background.

Friday 19th

Module 5: Wrapping-up
Development and presentation of individual projects combining data wrangling skills and user inputs using Shiny (R Studio)

Please feel free to distribute this material anywhere you feel is suitable.

Upcoming courses - email for details [e-mail]

1. ADVANCING IN STATISTICAL MODELLING FOR EVOLUTIONARY BIOLOGISTS AND ECOLOGISTS USING R #ADVR 17th - 21st April 2017, Scotland, Dr. Luc Bussiere, Dr. Ane Timenes Laugen http://www.prstatistics.com/course/advancing-statistical-modelling-using-r-advr06/

2. CODING, DATA MANAGEMENT AND SHINY APPLICATIONS USING RSTUDIO FOR EVOLUTIONARY BIOLOGISTS AND ECOLOGISTS #CDSR 15th - 19th May, Scotland Dr. Aline Quadros http://www.prstatistics.com/course/coding-data-management-and-shiny-applications-using-rstudio-for-evolutionary-biologists-and-ecologists-cdsr01/

3. GEOMETRIC MORPHOMETRICS USING R #GMMR 5th - 9th June 2017, Scotland, Prof. Dean Adams, Prof. Michael Collyer, Dr. Antigoni Kaliontzopoulou http://www.prstatistics.com/course/geometric-morphometrics-using-r-gmmr01/

4. MULTIVARIATE ANALYSIS OF SPATIAL ECOLOGICAL DATA #MASE 19th - 23rd June, Canada, Prof. Subhash Lele, Dr. Peter Solymos http://www.prstatistics.com/course/multivariate-analysis-of-spatial-ecological-data-using-r-mase01/

5. TIME SERIES MODELS FOR ECOLOGISTS USING R (JUNE 2017 #TSME 26th - 30th June, Canada, Dr. Andrew Parnell http://www.prstatistics.com/course/time-series-models-foe-ecologists-tsme01/

6. BIOINFORMATICS FOR GENETICISTS AND BIOLOGISTS #BIGB 3rd - 7th July 2017, Scotland, Dr. Nic Blouin, Dr. Ian Misner http://www.prstatistics.com/course/bioinformatics-for-geneticists-and-biologists-bigb02/

7. META-ANALYSIS IN ECOLOGY, EVOLUTION AND ENVIRONMENTAL SCIENCES #METR01 24th - 28th July, Scotland, Prof. Julia Koricheva, Prof. Elena Kulinskaya http://www.prstatistics.com/course/meta-analysis-in-ecology-evolution-and-environmental-sciences-metr01/

8. SPATIAL ANALYSIS OF ECOLOGICAL DATA USING R #SPAE 7th - 12th August 2017, Scotland, Prof. Jason Matthiopoulos, Dr. James Grecian http://www.prstatistics.com/course/spatial-analysis-ecological-data-using-r-spae05/

9. ECOLOGICAL NICHE MODELLING USING R #ENMR 16th - 20th October 2017, Scotland, Dr. Neftali Sillero http://www.prstatistics.com/course/ecological-niche-modelling-using-r-enmr01/

10. INTRODUCTION TO BIOINFORMATICS USING LINUX #IBUL 16th - 20th October, Scotland, Dr. Martin Jones http://www.prstatistics.com/course/introduction-to-bioinformatics-using-linux-ibul02/

11. GENETIC DATA ANALYSIS AND EXPLORATION USING R #GDAR 23rd - 27th October, Wales, Dr. Thibaut Jombart, Zhian Kavar http://www.prstatistics.com/course/genetic-data-analysis-exploration-using-r-gdar03/

12. STRUCTURAL EQUATION MODELLING FOR ECOLOGISTS AND EVOLUTIONARY BIOLOGISTS USING R #SEMR 23rd - 27th October, Wales, Prof Jarrett Byrnes, Dr. Jon Lefcheck http://www.prstatistics.com/course/structural-equation-modelling-for-ecologists-and-evolutionary-biologists-semr01/

13. LANDSCAPE (POPULATION) GENETIC DATA ANALYSIS USING R #LNDG 6th - 10th November, Wales, Prof. Rodney Dyer http://www.prstatistics.com/course/landscape-genetic-data-analysis-using-r-lndg02/

14. APPLIED BAYESIAN MODELLING FOR ECOLOGISTS AND EPIDEMIOLOGISTS #ABME 20th - 25th November 2017, Scotland, Prof. Jason Matthiopoulos, Dr. Matt Denwood http://www.prstatistics.com/course/applied-bayesian-modelling-ecologists-epidemiologists-abme03/

15. INTRODUCTION REMOTE SENSING AND GIS APPLICATIONS FOR ECOLOGISTS #IRMS 27th Nov - 1st Dec, Wales, Dr Duccio Rocchini, Dr. Luca Delucchi http://www.prstatistics.com/course/introduction-to-remote-sensing-and-gis-for-ecological-applications-irms01/

16. INTRODUCTION TO PYTHON FOR BIOLOGISTS #IPYB 27th Nov - 1st Dec, Wales, Dr. Martin Jones http://www.prstatistics.com/course/introduction-to-python-for-biologists-ipyb04/

17. DATA VISUALISATION AND MANIPULATION USING PYTHON #DVMP 11th - 15th December 2017, Wales, Dr. Martin Jones http://www.prstatistics.com/course/data-visualisation-and-manipulation-using-python-dvmp01/

18. ADVANCING IN STATISTICAL MODELLING USING R #ADVR 11th - 15th December 2017, Wales, Dr. Luc Bussiere, Dr. Tom Houslay, Dr. Ane Timenes Laugen, http://www.prstatistics.com/course/advancing-statistical-modelling-using-r-advr07/

19. INTRODUCTION TO BAYESIAN HIERARCHICAL MODELLING #IBHM 29th Jan - 2nd Feb 2018, Scotland, Dr. Andrew Parnell http://www.prstatistics.com/course/introduction-to-bayesian-hierarchical-modelling-using-r-ibhm02/

20. ANIMAL MOVEMENT ECOLOGY (February 2018) #ANME 19th - 23rd February 2018, Wales, Dr Luca Borger, Dr. John Fieberg

21. AQUATIC TELEMENTRY DATA ANALYSIS USIR R (TBC) #ATDAR ??th - ??th February 2018, Wales,

22. FUNCTIONAL ECOLOGY FROM ORGANISM TO ECOSYSTEM: THEORY AND COMPUTATION #FEER 5th - 9th March 2018, Scotland, Dr. Francesco de Bello, Dr. Lars Götzenberger, Dr. Carlos Carmona http://www.prstatistics.com/course/functional-ecology-from-organism-to-ecosystem-theory-and-computation-feer01/

23. ADVANCES IN MULTIVARIATE ANALYSIS OF SPATIAL ECOLOGICAL DATA USING R #MVSP Prof. Pierre Legendre, Dr. Olivier Gauthier - Date and location to be confirmed

24. STABLE ISOTOPE MIXING MODELS USING SIAR, SIBER AND MIXSIAR #SIMM Dr. Andrew Parnell, Dr. Andrew Jackson - Date and location to be confirmed

25. NETWORK ANAYLSIS FOR ECOLOGISTS USING R #NTWA Dr. Marco Scotti - Date and location to be confirmed

26. MODEL BASE MULTIVARIATE ANALYSIS OF ABUNDANCE DATA USING R #MBMV0 Prof David Warton - Date and location to be confirmed

27. ADVANCED PYTHON FOR BIOLOGISTS #APYB Dr. Martin Jones - Date and location to be confirmed

28. PHYLOGENETIC DATA ANALYSIS USING R (TBC) #PHYL Dr. Emmanuel Paradis - Date and location to be confirmed

-- Oliver Hooker PhD.
PR statistics

2017 publications -

Ecosystem size predicts eco-morphological variability in post-glacial diversification. Ecology and Evolution. In press.

The physiological costs of prey switching reinforce foraging specialization. Journal of animal ecology.

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3/1, 128 Brunswick Street
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[phone]

[A. Domingues]

I see that you are based in the UK. Any plans on doing a similar course(s) in Central Europe?

[oliverhooker]

HI,

Sorry I didn't receive an alert for this message.

In short yes we are but an exact location has yet to be confirmed as soon as they are I will let you know.

Best wishes,

Oliver