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--- course_information_-_uga_2020 [2020/04/04 17:50] – yutaka
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-==== Short course UGA 2020 - Programming and computer algorithms in animal breeding with focus on single-step GBLUP and genomic selection in practice ====
-=== EDITED on April 4, 2020 ===
-:!: The course was postponed to 2021. This page stays only for your information.
-=== EDITED on February 10, 2020 ===
-:!: Applications are now closed.\\
-All applications received after February 8, 2020 will be put on a waiting list with no guaranteed acceptance.
-=== When ===
-May 11 - 29, Athens, GA\\
-From 9:00am to 5:00pm
-=== Course Venue ===
-Department of Animal and Dairy Science\\
-River Road, Athens GA 30602\\
-=== Week 1.===
-Introduction to programming in Fortran 95/2003
-/* {{ :course18_uga_sa_ym_dl.pdf | Computational Techniques in Animal Breeding - Notes}} */
-=== Week 2.===
-**Monday - Wednesday:** \\
-   - Advanced programming in Fortran 95/2003\\
-   - Computer algorithms useful in animal breeding\\
-**Thursday - Friday:** \\
-   - Introduction to BLUPF90 family programs\\
-   - Associated programs: renumf90, inbupg,...\\
-   - Modeling:
-     - Basic models: single-trait, multiple trait, maternal,...\\
-     - Advanced models: random-regression, competition, threshold, censored,...\\
-   - Variance components estimation\\
-/* {{ :blupf90_2018.pdf | Introduction to blupf90}} \\
-{{ :introduction_to_renumf90_2018.pdf | Introduction to renumf90}} \\
-{{ :parallel_2018.pdf | Parallel computing with OpenMP}} \\ */
-\\
-=== Week 3. ===
-/* \\
-{{ :gsip.pdf | Bases for Genomic Predictions - Legarra et al. 2018}} \\
-\\ */
-**Monday** \\
-   - Introduction: brief history of genomic selection
-   - Basis of SNP data
-   - Data manipulation and scripts with Unix tools\\
-/* {{ :lourenco_course2018_day11.pdf | The promise of genomics for animal improvement }} \\
-{{ :andres_part1.pdf | Bases for genomic prediction }} \\
-{{ :unix_qc_etc.pdf | Unix commands and quality control}} \\ */
-\\
-**Tuesday** \\
-   - GBLUP, SNPBLUP, brief Bayesian Methods
-   - GBLUP with dominance
-   - BLUPF90 with user_file\\
-/* {{ :andres_part2.pdf | Models for genomic selection}} \\
-{{ :andres_part3.pdf | GBLUP and G matrices}} \\
-{{ :dominance_course2018.pdf | Non-additive effects in the genetic evaluation}} \\
-{{ :user_file.pdf | user_file in blupf90}} \\ */
-\\
-**Wednesday** \\
-  - ssGBLUP
-  - Genomic Options in Blupf90
-  - Cross-validation methods \\
-/* {{ :andres_part4.pdf | single-step GBLUP}} \\
-{{ :andres_part5.pdf | Details in ssGBLUP}} \\
-{{ :andres_part6.pdf | Risks of forecasting in animal breeding}} \\
-{{ :singlestepblupf90.pdf | ssGBLUP in blupf90}} \\
-{{ :as13.pdf | Answers to exercises - Assignment 13}} \\ */
-\\
-**Thursday** \\
-   - YAMS
-   - SNP effects from ssGBLUP
-   - Strategies for many genotyped animals
-   - Theoretical accuracies
-   - Use of postGSf90
-   - Real life example of large application of ssGBLUP \\
-/* {{ :postgsf90.pdf | Introduction to postGSf90}}
-{{ :lourenco_pag2017_day14.pdf | How large-scale genomic evaluations are are possible}}\\
-{{ :lourenco_theoretical_accuracies.pdf | Theoretical accuracy}}\\
-{{ :as14.pdf | Answers to exercises - Assignment 14}} \\ */
-\\
-**Friday. Single-step without limits and practical issues** \\
-  - Simulation of genomic data using QMSim
-  - Dimensionality of genomic information
-  - Analyses of sequence data
-  - Causative variants
-  - When to weight SNPs\\
-/* {{ :qmsim_course2018.pdf | Data simulation using QMSim}} \\
-{{ :uga2018_yams.pdf | YAMS - A sparse matrix package}} \\
-{{ :course18.pdf | Questions in Genomic Selection and History of single-step}} \\ */
-\\
-/* **All Assignments** \\
-{{ :Assignment_2018_all.pdf | Assignments Course 2018}} \\ */
-\\
-=== Instructors: ===
-Ignacy Misztal, Daniela Lourenco, Shogo Tsuruta, and Yutaka Masuda (UGA) \\
-Andres Legarra and Zulma Vitezica (France) \\
-Ignacio Aguilar (Uruguay)
-=== Attendance: ===
-The course can be attended in full or partially. The attendance in Weeks 1-2 is limited to 25 and in Week 3 is limited to 35. Those attending for 2-3 weeks will have priority. \\
-Those familiar with basics of Fortran 95 can skip Week 1. Those familiar with the BLUPF90 software can skip Week 2. \\
-Thursday-Friday of Week 2 and Week 3 will involve very limited programming and can thus be attended by those interested in
-application programs and genomic applications. \\
-=== Prerequisites: ===
-Participants are expected to be familiar with mixed model equations and quantitative genetics. \\
-Familiarity with Linux / Unix environments a plus. \\
-Knowledge of programming in any programming language is a strong plus.
-=== Fees: ===
-The fees will be the same regardless of the number of weeks attended\\
-  * Industry - $1200\\
-  * Academic - $700\\
-  * Graduate student - $500\\
-  * Graduate students from USA who are part of AG*IDEA institution - might be able to waive the registration fee\\
-=== Forms of Payment: ===
-Cash, checks (US) or wire transfers \\
-We are unable to accept credit card or PayPal payments\\
-Download the payment instructions {{ :Payment_information.pdf | here}}\\
-If paying by wire transfer, the information is {{ :wire_transfer_bank_instructions_2020.pdf | here}}\\
-=== Deadline Application: ===
-<del>March 2</del>, <del>February 8, 2020</del>, Applications closed: we will put the new applications (after February 8, 2020) to a waiting list with no guaranteed acceptance.\\
-Download the {{application_form_2020.pdf |Application Form}} \\
-**To speed up the process, email your application form to Susan Bradley <susanb@uga.edu>** \\
-**Payment information will be emailed to you as soon as your application is processed** \\
-\\
-=== Logistics: ===
-The closest airport to Athens is in Atlanta. For transportation to and from the Atlanta airport, see: https://groometransportation.com/athens/
-=== Housing: ===
-Housing at the university dorms will be available. The registration will be open in April: https://housing.uga.edu/site/register_summer \\
-On-campus hotel (Georgia Center) is also an option: https://www.hotel.uga.edu/ \\
-An extended stay hotel provides accommodation at ~ $250/week (DO NOT book before reading reviews): https://www.intownsuites.com/extended-stay-locations/georgia/metro-athens/ \\
-Other housing options can be booked through regular booking websites and Airbnb.  \\
-=== Athens information: ===
-See [[http://nce.ads.uga.edu/about/|the official website]] or [[Athens|separate pages]]. \\
-\\