Armidale Animal Breeding
Summer Course 2015
Venue: University
of New England, Armidale, NSW Australia
Course Audience: Postgraduate
students and other professionals
Module 1
Primer to Analysis of Genomic Data Using R
Teacher: Cedric
Gondro
University of New
England
Armidale, , Australia
Dates: Wednesday
28 January 2015 (9am) - Friday 30 January 2015 (4pm)
Content 2015 Course Module 1:
- Understanding the basics of R needed to analyse genomic data.
- The basics of Illumina BeadChip genotyping
and analysis in Genome Studio.
- R packages available for genomic analysis.
- How to work with and manipulate large data files.
- The importance of pre-processing and quality control with genomic
data.
- Principles of genome wide association studies.
- Principles of expression analysis.
- Working with public databases to extract biological information.
Automation
of analyses
Website Link for materials Module 1:
http://www-personal.une.edu.au/~cgondro2/Rcourse.htm
Module 2
From
Sequence Data to Genomic Prediction
Teachers: Ben
Hayes and Hans Daetwyler
Department of
Environment and Primary Industries
Bundoora, Victoria,
Australia
Dates: Monday
2 February 2015 (9am) - Friday 6 February 2015 (4pm)
Materials Module 2:
NOTES
SLIDES
Day5 Genomic Prediction with
Sequence
Day5
Genomic Breeding Programs
Day5
Imputation to sequence (1 slide)
PRACTICALS
data for sequence prac (100 Mb) is
on
https://www.dropbox.com/sh/3ug96im9vyxlo7f/AAB5eOUyQGXhkYcPa6ss_NrAa
·
Materials previous Armidale summer courses
A subset of participants Hans,
Ben and Julius
·
Materials previous Armidale summer courses
Animal Genetics, UNE
phone: 02 6773 2092
fax 02 6773 3922
Material of previous years:
Armidale Animal Breeding Summer Course 2014 Materials
Breeding Program Design
with Genomic Selection: Jack Dekkers, Julius van der Werf
Armidale Animal Breeding Summer Course 2012 Materials
Statistical Methods
for Genome-Enabled Selection: Daniel Gianola,
Gustavo de los Campos
Armidale Animal Breeding Summer Course 2011 Materials
· Statistical methods and
design in plant breeding and genomics: Ian Mackay
·
IBD
inference in genome association studies: Elizabeth Thompson
Armidale Animal Breeding Summer Course 2010 Materials
· Application
of evolutionary algorithms to solve complex problems in quantitative
genetics
and
bioinformatics: Brian Kinghorn, Cedric Gondro
·
Bayesian methods in
genome association studies: Dorian
Garrick, Rohan Fernando
Armidale Animal Breeding Summer Course 2009 Materials
·
Quantitative
Genetic Theory and Analysis- Selection Theory: Bruce
Walsh
· Quantitative Genetic Models for social
interaction and inherited variability: Piter Bijma
Armidale Animal Breeding Summer
Course 2008 Materials
·
Genomic
Selection: Ben Hayes
Armidale Animal Breeding Summer
Course 2007 Materials
·
Generalized Linear Mixed Models:
Steve Kachman
Armidale Animal Breeding Summer
Course 2006 Materials
· Gene Expression:
Toni Reverter
·
Breeding Program Design:
Graser,
James, Van der Werf
Armidale Animal Breeding Summer
Course 2003 Materials