IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint -...
Transcript of IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint -...
![Page 1: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/1.jpg)
Lauren HydeDirector and Lead Geneticist
September 16, 2015
REPORT
![Page 2: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/2.jpg)
Current IGS Database12 breed associations16,000,000 animals340,000 new animals per year
![Page 3: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/3.jpg)
Current SoftwareInitially developed in 1980s using Fortran 77Implemented multi-breed international cattle evaluation (MB-ICE) in 1997Last major modification in 2012 with multi-breed calving ease EPDsContinually being updated using Fortran 95Very limited
![Page 4: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/4.jpg)
Current NeedsDirect incorporation of genomics into EPDsImproved accuracy computationAbility to handle quickly growing large databaseEfficiency and speed
![Page 5: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/5.jpg)
Biometry Open Language Tools
The next generation in genomic evaluation
![Page 6: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/6.jpg)
Leverage technology built for computer gaming
![Page 7: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/7.jpg)
![Page 8: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/8.jpg)
![Page 9: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/9.jpg)
BOLT Major FeaturesFine grid to “embarrassingly” parallel capability
Multi-GPU (CUDA)Multi-coreMulti-threaded asynchronous execution
Shared memory for performance
![Page 10: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/10.jpg)
BOLT Major FeaturesNovel algorithmsWritten in CIntegrated with Unix user utilitiesExtremely flexible
Complete set of extensible tools/commandsSimple user API
![Page 11: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/11.jpg)
Biometry Open Language Toolkitcorr fblockinv mmultongpu mtmgpu csolvefsolve insbmtx mnvar absorbx csolvesfsolves invert mprin mmultgpu tsolveabsorbxm csub genomult invnrm pcgmgpuastarsetup csubm gpustat pedrecode sthmgibbscadd cudacheck grpcnt lambayes permsubcgen_z cudarnd grpmn libbolt rankchcat cvcat grps libboltcuda sdatecholesky cvcatcsr grps2 load2csc shmgrcln diag ident minmax sp2mmcmult include impute stack_ped ssgibbscnewr fbcsrmv imputegpu mmult transMcnewr2 fblockinv
![Page 12: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/12.jpg)
Emphasizes sampler-based strategies to:--Incorporate genomics--Maximize accuracy
![Page 13: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/13.jpg)
Mixed Model Equations
![Page 14: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/14.jpg)
Animals →
Markers →
Genomic Information
![Page 15: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/15.jpg)
Example of Performance Computing
6,625,000,000,000,000(6.6 quadrillion) flopCompute Time: 48m
(2.29 Tflops)
![Page 16: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/16.jpg)
BOLT ImplementationScheduled for early 2016
Data issues (international IDs, breed compositions)Spring bull sales
Development and testingGrowth traits—framework built, testing well underwayCarcass traits—initial framework built, start testingThreshold traits—start after growth complete
![Page 17: IGSReport 20150916 Lauren Hyde - Fall Focus Leap.pdf · Microsoft PowerPoint - IGSReport_20150916_Lauren Hyde Author: kesle Created Date: 9/25/2015 2:32:43 AM ...](https://reader033.fdocuments.in/reader033/viewer/2022042711/5f6c87f29fd0385faf753bbc/html5/thumbnails/17.jpg)