Changes

From Statistical Genetics Courses

Jump to: navigation, search

Advgenemap2021

4,050 bytes added, 06:37, 20 January 2021
/* Course Photo - 2020 */
[http://statgen.us/files/2021/02/Rockefeller_advanced_course_flyer_2021.pdf Click here for course flyer] (please post and distribute)
==Course Photo - 2020Handouts======[[File:142FBA93-B26F-45A4-A0C5-264B812AB558//www.JPG|thumb|none|300px]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====
* [[Tutorials#FastLMM | Family-based Association using FaST-LMM, PLINK and R]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/fastlmm-gcta.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/fastlmm-gcta/tags docker image]
* [[Tutorials#GCTA|GCTA]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/fastlmm-gcta.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/fastlmm-gcta/tags docker image]
* [[Tutorials#Epistasis_.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===
====Lectures====
* [//www.statgen.us/files/2020/01/docs/lectures/Rockefeller_Adv_Course_DeWan_pleiotropy_4.pdf From cross-phenotype associations to pleiotropy in human genetic studies]
 
====Exercises====
* [[Tutorials#Pleiotropy|Pleiotropy]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/pleiotropy.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/pleiotropy/tags docker image]
===Suzanne Leal===
====Lectures====
* [//www.statgen.us/files/2020/01/docs/lectures/data_quality_control_1.pdf Data Quality Control]
* [//www.statgen.us/files/2020/01/docs/lectures/NGS_data_qc.pdf NGS Data Quality Control]
* [//www.statgen.us/files/2020/01/docs/lectures/analysis_rare_variants_part_1.pdf Complex Trait Association Analysis of Rare Variants]
* [//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://github.com/statgenetics/statgen-courses/blob/master/docker/pseq.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/pseq/tags docker image]
* [[Tutorials#Variant_Association_Tools|Association Analysis of Sequence Data using Variant Association Tools for Complex Traits]] | [https://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://github.com/statgenetics/statgen-courses/blob/master/docker/annovar.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/annovar/tags docker image]
===Shamil Sunyaev===
====Exercises====
* [http://statgen.us/files/2021/02/exercises/NPS.pdf Polygenic risk prediction using non-parametric shrinkage] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/nps.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/nps/tags docker image]
<!--
* [[Tutorials#Polygenic_risk_prediction_.28NPS_method.29|Polygenic risk prediction using non-parametric shrinkage]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/nps.dockerfile dockerfile] and [https://hub.docker.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).
 
 
 
===Heather Cordell===
===Nancy Cox===
===Andrew DeWan===
===Suzanne Leal===
===Shamil Sunyaev===
===Gao Wang===