From: Brian W. <th...@gm...> - 2016-01-28 16:17:48
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'CABOG' introduced support for a more sensitive overlap algorithm that was insensitive to homopolymer errors, the 'mer' overlapper. This did not scale much past microbial assemblies, and is NOT recommended for use. Aside from that, there was no explicit support for correcting homopolymer errors. Using sffToCA to convert from .sff to CA's .frg format will enable all the 454 specific algorithms. Most of these deal with mate pairs. b On Thu, Jan 28, 2016 at 2:43 AM, Tamim Kabir <tam...@gm...> wrote: > Dear Sir/Madam, > > Good day. We are assembling 454 (single + pair) end data for a plant > genome by using CABOG. But, we are very much worried about homopolymer > error of 454 data. How do we remove homopolymer error by using CABOG? > What's parameter used I use for this purposes. > > Thanks in advance > Shah Md Tamim Kabir > Biotechnologist > Dhaka, Bangladesh > > > ------------------------------------------------------------------------------ > Site24x7 APM Insight: Get Deep Visibility into Application Performance > APM + Mobile APM + RUM: Monitor 3 App instances at just $35/Month > Monitor end-to-end web transactions and take corrective actions now > Troubleshoot faster and improve end-user experience. Signup Now! > http://pubads.g.doubleclick.net/gampad/clk?id=267308311&iu=/4140 > _______________________________________________ > wgs-assembler-users mailing list > wgs...@li... > https://lists.sourceforge.net/lists/listinfo/wgs-assembler-users > > |