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Jump to navigationJump to searchSeqShop: Genetic Association Analysis Practical, December 2014 (view source)
Revision as of 10:27, 2 February 2017
, 10:27, 2 February 2017→Download & Build EPACTS
== Introduction ==
== Introduction ==
Main Workshop wiki page: [[SeqShop: December 2014]]
Main Workshop wiki page: [[SeqShop: May 2015]]
[[Media:Seqshop association 2014 06.pdf|View Lecture Slides]]
[[Media:Seqshop association 2014 06.pdf|View Lecture Slides]]
cd ~/seqshop/
cd ~/seqshop/
* download, decompress, and build the version of epacts that was tested with this tutorial:
* download, decompress, and build the version of epacts that was tested with this tutorial:
wget http://www.sph.umich.edu/csg/kang/epacts/download/EPACTS-3.2.6.tar.gz
wget http://csg.sph.umich.edu//kang/epacts/download/EPACTS-3.2.6.tar.gz
tar xvf EPACTS-3.2.6.tar.gz
tar xvf EPACTS-3.2.6.tar.gz
cd EPACTS-3.2.6
cd EPACTS-3.2.6
View Output file
View Output file
<div class="mw-collapsible-content" style="width:800px">
<div class="mw-collapsible-content" style="width:800px">
#CHROM BEGIN END MARKER_ID NS FRAC_WITH_RARE NUM_ALL_VARS NUM_PASS_VARS NUM_SING_VARS PVALUE STATRHO
#CHROM BEGIN END MARKER_ID NS FRAC_WITH_RARE NUM_ALL_VARS NUM_PASS_VARS NUM_SING_VARS PVALUE STATRHO
22 36655735 36661906 22:36655735-36661906_APOL1 62 0.14516 7 4 0 0.22427 1
22 36655735 36661906 22:36655735-36661906_APOL1 62 0.14516 7 4 0 0.22427 1
22 36623731 36633107 22:36623731-36633107_APOL2 62 0.064516 4 1 0 0.038657 NA
22 36623731 36633107 22:36623731-36633107_APOL2 62 0.064516 4 1 0 0.038657 NA
22 36537763 36556823 22:36537763-36556823_APOL3 62 0.080645 4 2 0 0.40763 0
22 36537763 36556823 22:36537763-36556823_APOL3 62 0.080645 4 2 0 0.40763 0
22 36587154 36598081 22:36587154-36598081_APOL4 62 0.096774 12 4 0 0.55686 1
22 36587154 36598081 22:36587154-36598081_APOL4 62 0.096774 12 4 0 0.55686 1
22 36122356 36124860 22:36122356-36124860_APOL5 62 0.1129 5 2 0 0.15235 0.3
22 36122356 36124860 22:36122356-36124860_APOL5 62 0.1129 5 2 0 0.15235 0.3
22 36900271 36900806 22:36900271-36900806_FOXRED2 NA NA 2 0 0 NA NA
22 36900271 36900806 22:36900271-36900806_FOXRED2 NA NA 2 0 0 NA NA
22 36681163 36710183 22:36681163-36710183_MYH9 62 0.048387 3 1 0 0.075809 NA
22 36681163 36710183 22:36681163-36710183_MYH9 62 0.048387 3 1 0 0.075809 NA
22 36711990 36711990 22:36711990-36711990_Metazoa_SRP NA NA 1 0 0 NA NA
22 36711990 36711990 22:36711990-36711990_Metazoa_SRP NA NA 1 0 0 NA NA
22 36424450 36424450 22:36424450-36424450_RBFOX2 62 0.032258 1 1 0 1 NA
22 36424450 36424450 22:36424450-36424450_RBFOX2 62 0.032258 1 1 0 1 NA
22 36792162 36792162 22:36792162-36792162_RP4-633O19__A.1 NA NA 1 0 0 NA NA
22 36792162 36792162 22:36792162-36792162_RP4-633O19__A.1 NA NA 1 0 0 NA NA
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