http://icb.med.cornell.edu/wiki/index.php?title=Special:Recentchanges&days=1&feed=atom 2009-11-24T23:36:26Z Track the most recent changes to the wiki on this page. MediaWiki 1.6.8 http://icb.med.cornell.edu/wiki/index.php/Elementolab/SNPseeqer_Install 2009-11-24T22:25:20Z

<p></p> <table border='0' width='98%' cellpadding='0' cellspacing='4' style="background-color: white;"> <tr> <td colspan='2' width='50%' align='center' style="background-color: white;">Revision as of 22:25, 24 November 2009</td> <td colspan='2' width='50%' align='center' style="background-color: white;">Current revision</td> </tr> <tr><td colspan="2" align="left"><strong>Line 23:</strong></td> <td colspan="2" align="left"><strong>Line 23:</strong></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"> cat *.fa &gt; wg.fa</td><td> </td><td style="background: #eee; font-size: smaller;"> cat *.fa &gt; wg.fa</td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"> export HG18DIR=`pwd`</td><td> </td><td style="background: #eee; font-size: smaller;"> export HG18DIR=`pwd`</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;">* dbSNP release 130</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"> cd REFDATA</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"> </td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"></td><td> </td><td style="background: #eee; font-size: smaller;"></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">You are now ready to use SNPseeqer. Please take a look at the [http://icb.med.cornell.edu/wiki/index.php/Elementolab/SNPseeqer_Tutorial tutorial] for more information on how to use the program.</td><td> </td><td style="background: #eee; font-size: smaller;">You are now ready to use SNPseeqer. Please take a look at the [http://icb.med.cornell.edu/wiki/index.php/Elementolab/SNPseeqer_Tutorial tutorial] for more information on how to use the program.</td></tr> </table>

Ole2001 http://icb.med.cornell.edu/wiki/index.php/Elementolab/ChIPseeqer_Summary 2009-11-24T21:23:42Z

<p></p> <table border='0' width='98%' cellpadding='0' cellspacing='4' style="background-color: white;"> <tr> <td colspan='2' width='50%' align='center' style="background-color: white;">Revision as of 21:23, 24 November 2009</td> <td colspan='2' width='50%' align='center' style="background-color: white;">Current revision</td> </tr> <tr><td colspan="2" align="left"><strong>Line 15:</strong></td> <td colspan="2" align="left"><strong>Line 15:</strong></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">2. Type the command:</td><td> </td><td style="background: #eee; font-size: smaller;">2. Type the command:</td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"></td><td> </td><td style="background: #eee; font-size: smaller;"></td></tr> <tr><td>-</td><td style="background: #ffa; font-size: smaller;"> $ ./ChIPseeqerSummary --targets='''TF_targets.txt''' --lenu='''<span style="color: red; font-weight: bold;">1000</span>''' -lend='''500''' --prefix='''TF_targets_SUM'''</td><td>+</td><td style="background: #cfc; font-size: smaller;"> $ ./ChIPseeqerSummary --targets='''TF_targets.txt''' --lenu='''<span style="color: red; font-weight: bold;">2000</span>''' -lend='''500''' --prefix='''TF_targets_SUM'''</td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"></td><td> </td><td style="background: #eee; font-size: smaller;"></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">The following options are available:</td><td> </td><td style="background: #eee; font-size: smaller;">The following options are available:</td></tr> </table>

Ole2001 http://icb.med.cornell.edu/wiki/index.php/Elementolab/Perl_Tips 2009-11-23T20:38:36Z

<p></p> <table border='0' width='98%' cellpadding='0' cellspacing='4' style="background-color: white;"> <tr> <td colspan='2' width='50%' align='center' style="background-color: white;">Revision as of 20:38, 23 November 2009</td> <td colspan='2' width='50%' align='center' style="background-color: white;">Current revision</td> </tr> <tr><td colspan="2" align="left"><strong>Line 1:</strong></td> <td colspan="2" align="left"><strong>Line 1:</strong></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">* A nice Perl module to create Excel spreadsheets in Perl: Spreadsheet::WriteExcel</td><td> </td><td style="background: #eee; font-size: smaller;">* A nice Perl module to create Excel spreadsheets in Perl: Spreadsheet::WriteExcel</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"></td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"> http://homepage.eircom.net/~jmcnamara/perl/WriteExcel.html</td></tr> <tr><td colspan="2">&nbsp;</td><td>+</td><td style="background: #cfc; font-size: smaller;"> http://search.cpan.org/dist/Spreadsheet-WriteExcel/</td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;"></td><td> </td><td style="background: #eee; font-size: smaller;"></td></tr> <tr><td> </td><td style="background: #eee; font-size: smaller;">* Connected components (using Olivier's Sets.pm multipurpose module)</td><td> </td><td style="background: #eee; font-size: smaller;">* Connected components (using Olivier's Sets.pm multipurpose module)</td></tr> </table>

Ole2001