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Landscape genetic data analysis using R (LNDG01)
17th October 2016 - 21st October 2016£580 - £950
The term ‘landscape genetics’ has been applied studies that integrate ecological context and intervening landscape into population genetic analyses of contemporary processes such as gene flow and migration. This course will cover the basics of both quantitative landscape ecology and population genetics, focusing on how we develop and evaluate spatial/genetic analyses using the R platform.
This course is suitable for graduate students, postdoctoral researchers, and primary investigators interested in learning how to integrate landscape ecological and population genetic tools using the R software.
We offer two packages
• COURSE ONLY – Includes lunch and refreshments.
• ALL INCLUSIVE – Includes breakfast, lunch, dinner, refreshments, minibus to and from meeting point and accommodation. Accommodation is multiple occupancy (max 3 people) single sex en-suite rooms. Arrival Sunday 16th October and departure Friday 21st October PM.
To book ‘COURSE ONLY’ or ‘ALL INCLUSIVE’ pleases scroll to the bottom of this page.
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Cancellation policy: Cancellations are accepted up to 28 days before the course start date subject to a 25% cancellation fee. Cancellations later than this may be considered, contact firstname.lastname@example.org Failure to attend will result in the full cost of the course being charged. In the unfortunate event that PR~statistics must cancel this course due to unforeseen circumstances a full refund for the course will be credited. However PR~statistics cannot be held responsible for any travel fees, accommodation or other expenses incurred to you as a result of the cancellation.
There will be morning lectures based on the modules outlined in the course timetable. In the afternoon there will be practicals based on the topics covered that morning. Data sets for computer practicals will be provided by the instructors, but participants are welcome to bring their own data.
Assumed quantitative knowledge
A basic understanding of statistical concepts. Specifically, generalised linear regression models, statistical significance, hypothesis testing.
Assumed computer background
Familiarity with R. Ability to import/export data, manipulate data frames, fit basic statistical models & generate simple exploratory and diagnostic plots.
Equipment and software requirements
A laptop/personal computer with a working version or R and RStudio installed. R and RStudio are supported by both PC and MAC and can be downloaded for free by following these links.
It is essential that you come with all necessary software and packages already installed (you will be sent a list of packages prior to the course) internet access may not always be available.
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Meet at the Tullie Inn, Balloch at approximately 18:30 before being taken by minibus to SCENE (Download directions PDF).
Monday 17th – Classes from 09:00 to 17:00
Module 1: Spatial & Ecological Data.
Installation & configuring R & RStudio
Acquiring spatial data, projections, and visualization
Vector and raster data
Tuesday 18th – Classes from 09:00 to 17:00
Module 2: Genetic markers and basic analyses
Genetic markers and sampling
Genetic distance, diversity, and structure
Ordination techniques based upon genetic markers
Wednesday 19th – Classes from 09:00 to 17:00
Module 3: Integrating spatial and genetic data
Barrier detection & population division
Mantel and distance regressions
Remote sensing – LiDAR and Hyperspectral data
Thursday 20th – Classes from 09:00 to 17:00
Module 4: Integrating spatial and genetic data
PCMN & Redundancy
Friday 21st – Classes from 09:00 to 16:00
Module 5: Adaptive Genetic Variance
Outliers & gradients
Quantitative genetics, why we should care.