Difference between revisions of "Main Page"

From Statistical Genetics Courses

Jump to: navigation, search
(→‎Variant Association Tools)
(→‎Statistical Genetics Courses)
 
(168 intermediate revisions by 3 users not shown)
Line 1: Line 1:
−
==Welcome==
+
__NOTOC__
−
We are a group of dedicated statistical geneticists led by Dr. Suzanne M. Leal at Baylor College of Medicine, Houston, Texas. Please visit the [https://www.bcm.edu/research/labs/center-for-statistical-genetics BCM website] to read about our research!
+
  
−
====[https://www.bcm.edu/research/labs/center-for-statistical-genetics/center-members Members of the Center for Statistical Genetics]====
+
==Statistical Genetics Training Resources==
−
====[http://www.ncbi.nlm.nih.gov/myncbi/browse/collection/43289644/?sort=date&direction=ascending Publications]====
+
We are an international group of statistical geneticists who wish to make training resources available to the genetics community. We offer tutorials for a variety of analysis tools/software. We also offer courses on a variety of topics related to analysis of human genetic data.
−
====[[Genetic Meetings of Interest]]====
+
−
==Statistical Genetics Software==
+
−
* [http://tigerwang.org/software/kbac KBAC]
+
−
* [https://github.com/statgenetics/mendelprob MendelProb]
+
−
* [https://code.google.com/p/phenoman/ PhenoMan]
+
−
* [http://bioinformatics.org/simped/rare/ RarePedSim]
+
−
* [http://www.bioinformatics.org/rv-gdt/ RV-GDT]
+
−
* [http://bioinformatics.org/rv-tdt/wiki/ RV-TDT]
+
−
* [http://www.bioinformatics.org/seqlink/ SEQLinkage]
+
−
* [http://www.bioinformatics.org/spower/start SEQPower]
+
−
* [https://github.com/statgenetics/seqspark SEQSpark]
+
−
* [http://bioinformatics.org/simped SimPed]
+
−
* [https://code.google.com/p/simrare/ SimRare]
+
−
* [http://varianttools.sourceforge.net/Association/HomePage Variant Association Tools]
+
−
* [[VMT|Variant Mendelian Tools]]
+
  
−
==Tutorials==
+
===Our group===
−
===SeqSpark===
+
* Heather Cordell, Ph.D. (Newcastle University)
−
* [http://statgen.us/files/tutorials/seqspark/SEQSpark_exercise_Final_v3.pdf PDF]
+
* Andrew DeWan, Ph.D. (Yale University)
 +
* Suzanne M. Leal, Ph.D. (Columbia University and Rockefeller University)
 +
* Michael Nothnagel, Ph.D. (University of Cologne)
 +
* Gao T. Wang, Ph.D. (Columbia University)
  
−
===Variant Association Tools===
+
Material on this site are open source and can be found on GitHub at https://github.com/statgenetics/statgen-courses
−
* [http://statgen.us/files/tutorials/vat/VAT_exercise_2018%20with_graphs.pdf PDF]
+
 
 +
For questions concerning material on this site please raise them at the Discussion forum curated by our team, https://github.com/statgenetics/statgen-courses/discussions
  
 
==Statistical Genetics Courses==
 
==Statistical Genetics Courses==
 +
'''[[Genassoc2024|Genetic Association: with application to sequence and genotype data]]'''<br />September 16-20, 2024<br />Max Delbrück Center for Molecular Medicine, Berlin, Germany
 +
<br /><br />
 +
'''[[Advgenemap2025|Advanced Gene Mapping]]'''<br />January 27-31, 2025<br />The Rockefeller University, New York, USA
 +
<br /><br />
 +
[[Previous_Courses|Previous Course Pages]]
 +
 +
==Tutorials for Courses==
 +
* [[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]
 +
* [[Tutorials#Cochran_Armitage_Trend_Test|Cochran Armitage Trend Test for GWAS power analysis]]
 +
* [[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#IGV|IGV]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/igv.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/igv/tags docker image]
 +
* [[Tutorials#Gemini|Gemini]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/gemini.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/gemini/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#GWAS:_Data_Quality_Control|GWAS: QC]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/plink.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/plink/tags docker image]
 +
* [[Tutorials#GWAS:_Association_Analysis_Controlling_for_Population_Substructure|GWAS: Controlling for Population Substructure]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/plink.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/plink/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]
 +
* [[Tutorials#Linkage.2FFastLinkage|LINKAGE]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/mlink.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/mlink/tags docker image]
 +
* [[Tutorials#Population_Genetics|Population Genetics]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/popgen.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/popgen/tags docker image]
 +
* [[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]
 +
* [[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 dockefile] and [https://hub.docker.com/r/statisticalgenetics/nps/tags docker image]
 +
* [[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#R_and_PLINK|R and PLINK exercise]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/plink-r-nothnagel.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/plink-r-nothnagel/tags docker image]
 +
* [[Tutorials#Regression|Regression]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/regression.dockerfile dockefile] and [https://hub.docker.com/r/statisticalgenetics/regression/tags docker image]
 +
* [[Tutorials#RV-TDT|RV-TDT]]
 +
* [[Tutorials#SEQLinkage|SEQLinkage]]
 +
* [[Tutorials#SEQSpark|SEQSpark]]
 +
* [[Tutorials#SLINK|SLINK]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/slink.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/slink/tags docker image]
 +
* [[Tutorials#Variant_Association_Tools|Variant Association Tools]] | [https://github.com/statgenetics/statgen-courses/blob/master/docker/vat.dockerfile dockerfile] and [https://hub.docker.com/r/statisticalgenetics/vat/tags docker image]
 +
 +
<!---
 +
 +
==[[Genetic Meetings of Interest]]==
 
[[NGSMendelian2017|Identifying Genes for Mendelian Traits using Next Generation Sequence Data]], September 18-22, 2017<br />Max Delbrück Center for Molecular Medicine<br />Berlin, Germany
 
[[NGSMendelian2017|Identifying Genes for Mendelian Traits using Next Generation Sequence Data]], September 18-22, 2017<br />Max Delbrück Center for Molecular Medicine<br />Berlin, Germany
  
Line 79: Line 99:
  
 
[http://linkage.rockefeller.edu/suzanne/MDC_Berlin_Association_Course_2010.html Genetic Association Course], May 3-7, 2010<br />Max Delbrück Center (MDC) for Molecular Medicine<br />Berlin, Germany
 
[http://linkage.rockefeller.edu/suzanne/MDC_Berlin_Association_Course_2010.html Genetic Association Course], May 3-7, 2010<br />Max Delbrück Center (MDC) for Molecular Medicine<br />Berlin, Germany
 +
-->

Latest revision as of 05:40, 19 June 2024


Statistical Genetics Training Resources

We are an international group of statistical geneticists who wish to make training resources available to the genetics community. We offer tutorials for a variety of analysis tools/software. We also offer courses on a variety of topics related to analysis of human genetic data.

Our group

  • Heather Cordell, Ph.D. (Newcastle University)
  • Andrew DeWan, Ph.D. (Yale University)
  • Suzanne M. Leal, Ph.D. (Columbia University and Rockefeller University)
  • Michael Nothnagel, Ph.D. (University of Cologne)
  • Gao T. Wang, Ph.D. (Columbia University)

Material on this site are open source and can be found on GitHub at https://github.com/statgenetics/statgen-courses

For questions concerning material on this site please raise them at the Discussion forum curated by our team, https://github.com/statgenetics/statgen-courses/discussions

Statistical Genetics Courses

Genetic Association: with application to sequence and genotype data
September 16-20, 2024
Max Delbrück Center for Molecular Medicine, Berlin, Germany

Advanced Gene Mapping
January 27-31, 2025
The Rockefeller University, New York, USA

Previous Course Pages

Tutorials for Courses


Retrieved from "http://statgen.us/index.php?title=Main_Page&oldid=1508"