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<p class="MsoNormal"><span style="font-size:11.0pt">This is good to know. Unfortunately our university library does not have a Repbase license.<o:p></o:p></span></p>
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<p class="MsoNormal"><b><span style="font-size:11.0pt">From:</span></b><span style="font-size:11.0pt"> Fields, Christopher J <cjfields@illinois.edu>
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<b>Sent:</b> Tuesday, March 22, 2022 11:12 AM<br>
<b>To:</b> Taslim, Cenny <Cenny.Taslim@nationwidechildrens.org>; Carson Holt <carsonhh@gmail.com><br>
<b>Cc:</b> maker-devel@yandell-lab.org<br>
<b>Subject:</b> Re: [maker-devel] Repbase subscription<o:p></o:p></span></p>
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<p class="MsoNormal" style="mso-line-height-alt:.75pt"><span style="font-size:1.0pt;color:white">A small note on this: if you have an academic affiliation, a number of academic institutions have Repbase licenses through their libraries (much like a journal).
For example, this one from the U. of Illinois, which requires login to access. <o:p>
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<p class="MsoNormal"><span style="font-size:11.0pt">A small note on this: if you have an academic affiliation, a number of academic institutions have Repbase licenses through their libraries (much like a journal). For example, <a href="https://urldefense.com/v3/__https:/i-share-uiu.primo.exlibrisgroup.com/discovery/fulldisplay?docid=alma99908209112205899&context=L&vid=01CARLI_UIU:CARLI_UIU&search_scope=MyInstitution&tab=LibraryCatalog&lang=en__;!!NiUAmZJ8c1GNWg!UVhpFdTL43YRyH5cVMr6ZmLDDcspa33Cvu0EemZKJoMJZFv89jxzaFC38oktIIt7Y4aji_AWC7E3m1c0EeAx5eDuIMJPD9JSdQ$" target="_blank">this
one</a> from the U. of Illinois, which requires login to access. <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt"><br>
chris<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">On Feb 2, 2022, 11:18 AM -0600, Carson Holt <<a href="mailto:carsonhh@gmail.com">carsonhh@gmail.com</a>>, wrote:<br>
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<p class="MsoNormal"><span style="font-size:11.0pt">Yes. Do a manual install of RepeatMasker with HMMER as the aligner and Dfam as the reepeat database (free). Run RepeatModeler to get an assembly specific repeat dataset and give that to MAKER. The combination
of the two will allow you to mask sufficiently for the annotation. If for any reason you want to classify the repeats into families for further analysis rather than just mask them out, then you want a RepBase subscription.
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<p class="MsoNormal"><span style="font-size:11.0pt">—Carson<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">On Feb 2, 2022, at 10:05 AM, Taslim, Cenny <<a href="mailto:Cenny.Taslim@nationwidechildrens.org">Cenny.Taslim@nationwidechildrens.org</a>> wrote:<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">Hi,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt"> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">I just have a quick question before spending time to install maker. Now that Repbase requires active subscription as of April 2019, it is possible to run maker without Repbase?<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt"> <o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">Thanks,<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">Cenny<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">_______________________________________________<br>
maker-devel mailing list<br>
</span><span style="font-size:11.0pt"><a href="mailto:maker-devel@yandell-lab.org"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">maker-devel@yandell-lab.org</span></a></span><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif"><br>
</span><span style="font-size:11.0pt"><a href="https://urldefense.com/v3/__http:/yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org__;!!NiUAmZJ8c1GNWg!UVhpFdTL43YRyH5cVMr6ZmLDDcspa33Cvu0EemZKJoMJZFv89jxzaFC38oktIIt7Y4aji_AWC7E3m1c0EeAx5eDuIMLfqAYn0Q$"><span style="font-size:9.0pt;font-family:"Helvetica",sans-serif">http://yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org</span></a><o:p></o:p></span></p>
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