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comparison TRTR.git @ 2:b3b40009d056

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author mrvollger
date Thu, 11 Dec 2014 15:16:18 -0500
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455 <a href="/mvollger/TRTR/commit/18ed489cf4214dad15282176452bb12ce7d91e6e" class="sha-block" data-pjax>latest commit <span class="sha">18ed489cf4</span></a>
456
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459 <span class="author-name"><a href="/mvollger" rel="author">mvollger</a></span>
460 authored <time class="updated" datetime="2014-12-11T19:58:37Z" is="relative-time">Dec 11, 2014</time>
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536 </td>
537 <td class="message">
538 <span class="css-truncate css-truncate-target">
539 <a href="/mvollger/TRTR/commit/4b01881bee84344a00dda0a52e4d8f61f6817e08" class="message" data-pjax="true" title="This is version 1.00 of TRTR">This is version 1.00 of TRTR</a>
540 </span>
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553 </td>
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557 </span>
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560 <span class="css-truncate css-truncate-target"><time datetime="2014-12-11T19:47:00Z" is="time-ago">Dec 11, 2014</time></span>
561 </td>
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574
575 <article class="markdown-body entry-content" itemprop="mainContentOfPage"><p>This tool removes tandem repeats from ends of unaligned sequencing reads (leaving one copy). This prevents reads that don't span the repeated region from overlapping and leading to innaccurate SNPs calls.</p>
576
577 <p>The maximimum repeat length is adjustable (use 1 to trim only homopolymers).</p>
578
579 <p>The "aggressive" option should not be touched in general. Setting to 0 will prevent the program from trimming to exactly 1 copy of the repeat, instead leaving between 1 and 2 copies.</p>
580
581 <p>This could also be a useful first step before assembly. More testing needs to be done.</p>
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