==Annotation==
[http://statgen.us/files/tutorials/functional-annotation/FunctionalAnnotation_exercise_2018v2.pdf Functional Annotation Exercise <nowiki>[PDF]</nowiki>]
==Cochran Armitage Trend Test==
* [http://statgen.us/files/tutorials/Armitage_sample_size_Berlin_1.pdf CATT Exercise <nowiki>[PDF]</nowiki>]
==GATK and IGV==
* [http://statgen.us/files/tutorials/Variant_calling_exercices_GATK_IGV.pdf GATK/IGV Exercise <nowiki>[PDF]</nowiki>]
====Software Links====
:* [https://www.broadinstitute.org/gatk/ GATK]
:* [http://www.broadinstitute.org/igv/ IGV] ([http://statgen.us/files/software/igv.jar Download JAR file])
====Result Files====
:* [http://statgen.us/files/2016/07/gatk_results.tar.gz GATK/IGV exercise]
==GenABEL==
<pre>sudo apt-get install plink-tutorial</pre>
The exercise's files will then be installed in the folder ''/home/shared/Plink_DataQC''. You can run from there or copy the files into your user's home directory and proceed with the exercise.
==GWAS: Association Analysis Controlling for Population Substructure==
The exercise's files will then be installed in the folder ''/home/shared/Plink_substructure''. You can run from there or copy the files into your user's home directory and proceed with the exercise.
==Regression==* [http://statgen.us/files/tutorials/regression_exercise.pdf Regression Exercise <nowiki>[PDF]</nowiki>]* [[Regression_Exercise|Commands in Exercise]]
==RV-TDT==
<pre>sudo apt-get install rvtdt-tutorial</pre>
The exercise's files will then be installed in the folder ''/home/shared/rvtdt''. You can run from there or copy the files into your user's home directory and proceed with the exercise.
==Population Genetics==
* [http://statgen.us/files/tutorials/population/Popgen_exe_ans.pdf Popgen Exercise <nowiki>[PDF]</nowiki>]
* [http://statgen.us/files/tutorials/population/popgen_drift.q Commands for popgen_drift]
* [http://statgen.us/files/tutorials/population/popgen_selection.q Commands for popgen_selection]
==PSEQ==
<pre>sudo apt-get install vtools-tutorial</pre>
The exercise's files will then be installed in the folder ''/home/shared/vat''. You can run from there or copy the files into your user's home directory and proceed with the exercise.
==Cochran Armitage Trend Test==
* [http://statgen.us/files/tutorials/Armitage_sample_size_Berlin_1.pdf CATT Exercise <nowiki>[PDF]</nowiki>]
==Population Genetics==
* [http://statgen.us/files/tutorials/population/Popgen_exe_ans.pdf Popgen Exercise <nowiki>[PDF]</nowiki>]
* [http://statgen.us/files/tutorials/population/popgen_drift.q Commands for popgen_drift]
* [http://statgen.us/files/tutorials/population/popgen_selection.q Commands for popgen_selection]
==GATK and IGV==
* [http://statgen.us/files/tutorials/Variant_calling_exercices_GATK_IGV.pdf GATK/IGV Exercise <nowiki>[PDF]</nowiki>]
====Software Links====
:* [https://www.broadinstitute.org/gatk/ GATK]
:* [http://www.broadinstitute.org/igv/ IGV] ([http://statgen.us/files/software/igv.jar Download JAR file])
====Result Files====
:* [http://statgen.us/files/2016/07/gatk_results.tar.gz GATK/IGV exercise]
==Regression==
* [http://statgen.us/files/tutorials/regression_exercise.pdf Regression Exercise <nowiki>[PDF]</nowiki>]
* [[Regression_Exercise|Commands in Exercise]]