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genetica:bgscheme_all

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genetica:bgscheme_all [2013/01/31 15:20]
tgif remove perl script
genetica:bgscheme_all [2020/08/04 10:58] (current)
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-Procedure 2+=== Procedure for all tests ===
  
   * First we took the every provided file (listTEST5.txt, listTEST6.txt, listTEST15.txt, listTEST16.txt) and look for the proxies for every marker at http://www.broadinstitute.org/mpg/snap/ldsearch.php with,   * First we took the every provided file (listTEST5.txt, listTEST6.txt, listTEST15.txt, listTEST16.txt) and look for the proxies for every marker at http://www.broadinstitute.org/mpg/snap/ldsearch.php with,
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     </code>     </code>
   * We substitute every marker for all its proxies and construct every possible pair for each file   * We substitute every marker for all its proxies and construct every possible pair for each file
-  * Then, for everydatabase, we choose the pairs which contains both makers in database. Aparently interSNP do this but it is very slow. We make this with a simple perl script. (download below) +  * Then, for every database, we choose the pairs which contains both makers in database. Aparently interSNP do this but it is very slow. We make this with a simple perl script. (download below) 
-  * Now we run intersnp with the obtained pairs and each database. Here we run all those test using a template for the selection file writing the tags as needed.+  * Now we run intersnp with the obtained pairs and each database. Here we run all those test using a template for the selection file and writing the tags as needed.
 <code> <code>
 BFILE   <Database>  // put path and name of plink bfile there BFILE   <Database>  // put path and name of plink bfile there
genetica/bgscheme_all.1359645601.txt.gz · Last modified: 2020/08/04 10:48 (external edit)