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--- workshop:2013:software [2013/03/04 15:10] – created lessem
+++ workshop:2013:software [2013/03/08 17:34] (current) – lessem
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 ====== Software Used at the Workshop ======
+  * PLINK http://pngu.mgh.harvard.edu/~purcell/plink/
+  * PLINK/SEQ http://atgu.mgh.harvard.edu/plinkseq/
+  * Haploview http://www.broadinstitute.org/scientific-community/science/programs/medical-and-population-genetics/haploview/haploview
+  * gcta http://www.complextraitgenomics.com/software/gcta/
+  * minimac http://genome.sph.umich.edu/wiki/Minimac
+  * mach http://genome.sph.umich.edu/wiki/MaCH
+  * GotCloud http://genome.sph.umich.edu/wiki/GotCloud
+  * EPACTS http://genome.sph.umich.edu/wiki/EPACTS
+  * merlin http://www.sph.umich.edu/csg/abecasis/Merlin/
+  * qtdt http://www.sph.umich.edu/csg/abecasis/QTDT/
+  * Rare-Metal http://genome.sph.umich.edu/wiki/Rare-Metal
+  * Rare-Metal-Worker http://genome.sph.umich.edu/wiki/Rare-Metal-Worker
+  * JAG http://ctglab.nl/software/
+  * Jamp http://ctglab.nl/software/
+  * tates http://ctglab.nl/software/
+  * sgene http://ibg.colorado.edu/dokuwiki/lib/exe/fetch.php?media=workshop:2009:sgene.exe
+  * KGG http://bioinfo.hku.hk/kggweb/
+  * KGGSeq http://statgenpro.psychiatry.hku.hk/kggseq/
+  * pspp http://www.gnu.org/software/pspp/
+  * PennCNV http://www.openbioinformatics.org/penncnv/
+  * xhmm http://atgu.mgh.harvard.edu/xhmm/
+  * eigenstrat http://genepath.med.harvard.edu/~reich/Software.htm
+  * BayeScan http://cmpg.unibe.ch/software/bayescan/
+  * R http://cran.us.r-project.org/
+    * OpenMx http://openmx.psyc.virginia.edu/
+    * R-MASS http://cran.r-project.org/web/packages/MASS/index.html
+    * R-psych http://cran.r-project.org/web/packages/psych/
+    * R-car http://cran.r-project.org/web/packages/car/
+    * R-sem http://cran.r-project.org/web/packages/sem/
+    * Rplinkseq http://atgu.mgh.harvard.edu/plinkseq/r-intro.shtml
+    * Rstudio http://www.rstudio.com/