Changes
From Statistical Genetics Courses
/* Handouts */
For additional information on scientific program contact the course organizer [mailto:suzannemleal@gmail.com?subject=Rockefeller Advanced Gene Mapping Course 2020 Suzanne Leal]: <br />email: [mailto:suzannemleal@gmail.com suzannemleal@gmail.com] or [mailto:sml3@cumc.columbia.edu sml3@cumc.columbia.edu] <br />Tel: +1 (212) 304-7047
==Course Photo==[//statgen[File:142FBA93-B26F-45A4-A0C5-264B812AB558.us/files/2020/01/Rockefeller_advanced_course_flyer_2020.pdf Click here for course flyerJPG|thumb|none|] – Please Post and Distribute [//statgen.us/files/2020/01/adv_gene_mapping_schedule_2020.pdf Click here for course schedule]
==Handouts==
====[//www.statgen.us/files/2020/01/docs/lectures/Lecture_booklet.pdf All Lectures]====
====[//www.statgen.us/files/2020/01/docs/exercises/Booklet_exercises.pdf All Exercises]====
===Heather Cordell===
====Lectures====
* [//www.statgen.us/files/2020/01/docs/lectures/NY2020-lecture1-nopause_4.pdf Genome-wide association studies (GWAS) - Part 1]
* [//www.statgen.us/files/2020/01/docs/lectures/NY2020-lecture2-nopause_4.pdf Genome-wide association studies (GWAS) - Part 2]
====Exercises====
* [//www.statgen.us/files/2020/01/docs/exercises/FASTLMM-NY2020.pdf [Tutorials#FastLMM | Family-based Association using FaST-LMM, PLINK and R]* ] | [https://www.statgengithub.uscom/filesstatgenetics/2020statgen-courses/01blob/docsmaster/exercisesdocker/GCTAfastlmm-NY2020gcta.pdf GCTAdockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/fastlmm-gcta/tags docker image]* [[Tutorials#GCTA|GCTA]] | [https://wwwgithub.com/statgenetics/statgen.us-courses/filesblob/2020master/01docker/docsfastlmm-gcta.dockerfile dockefile] and [https:/exercises/Epistatsishub.docker.com/r/statisticalgenetics/fastlmm-NY2020gcta/tags docker image]* [[Tutorials#Epistasis_.pdf 28PLINK_and_CASSI.29 | Interaction analysis using PLINK and CASSI]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/epistasis.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/epistasis/tags docker image]
===Nancy Cox===
====Lectures====
* [//www.statgen.us/files/2020/01/docs/lectures/LealCourse_Cox_Jan2020.pdf Integrative Approaches in Biobanks: Getting to Biological Mechanisms of Disease]
===Andrew DeWan===
====Exercises====
* [[Tutorials#Pleiotropy|Pleiotropy]] | [https://wwwgithub.statgen.uscom/filesstatgenetics/2020statgen-courses/01blob/docsmaster/exercisesdocker/pleio_exercisepleiotropy.docx Pleiotropy Exercisedockerfile dockefile]* and [https://wwwhub.statgendocker.uscom/filesr/2020statisticalgenetics/01pleiotropy/docs/exercises/pleio_exercise_answers.docx Pleiotropy Exercise Answerstags docker image]
===Suzanne Leal===
* [//www.statgen.us/files/2020/01/docs/lectures/power_sample_sizes.pdf Power Analysis for Single and Rare Variant Aggregate Association Analyses]
* [//www.statgen.us/files/2020/01/docs/lectures/Analysis_rare_variants_part_2.pdf National Heart Lung and Blood Institute Exome Sequencing Project]
====Exercises====
* [[Tutorials#PSEQ|PLINK/SEQ (PSEQ)]] | [https:/www/github.com/statgenetics/statgen.us-courses/filesblob/2020master/01docker/docspseq.dockerfile dockefile] and [https:/exercises/PSEQ_exercisehub.pdf docker.com/r/statisticalgenetics/pseq/tags docker image]* [[Tutorials#Variant_Association_Tools|Association Analysis of Sequence Data using PLINKVariant Association Tools for Complex Traits]] | [https:/SEQ (PSEQ)/github.com/statgenetics/statgen-courses/blob/master/docker/vat.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/vat/tags docker image]* [[Tutorials#Cochran_Armitage_Trend_Test|Cochran Armitage Trend Test for GWAS power analysis]]* [[Tutorials#Annotation|ANNOVAR Annotation]] | [https://wwwgithub.com/statgenetics/statgen.us-courses/filesblob/2020master/01docker/docsannovar.dockerfile dockefile] and [https:/exercises/VAT_exercise_2018%20with_graphs_2hub.pdf Association Analysis of Sequence Data using Variant Association Tools for Complex Traitsdocker.com/r/statisticalgenetics/annovar/tags docker image]
===Bogdan Pasanuic===
* finemap
-->
===Shamil Sunyaev===
====Lectures====
* [//www.statgen.us/files/2020/01/docs/lectures/Rockefeller_pop_gen_2020.pdf Population Genetics]
* [//www.statgen.us/files/2020/01/docs/lectures/Rockefeller_complex_traits_2020.pdf Evolution, maintenance and allelic architecture of complex traits]
* [//www.statgen.us/files/2020/01/docs/lectures/Rockefeller_polygenic_2020.pdf Polygenic Risk Score]
* [//www.statgen.us/files/2020/01/docs/lectures/Rockefeller_function_2019.pdf Functional Annotation]
====Exercises====
* [[Tutorials#Polygenic_risk_prediction_.28NPS_method.29|Polygenic risk prediction using non-parametric shrinkage]] | [https://wwwgithub.com/statgenetics/statgen.us-courses/filesblob/2020master/01docker/docsnps.dockerfile dockefile] and [https:/exercises/NPShub.docx Non-Parametric Shrinkagedocker.com/r/statisticalgenetics/nps/tags docker image]
This course is supported by a grant from the National Institute of Health (NIH) - National Human Genome Research Institute (NHGRI).
