Hi Casper, the -c calling model assumes only biallelic sites. This is usually not a big issue, but can become a problem with cancer genomes for example. With many samples, -m can be more sensitive.
Petr On Tue, 2014-10-14 at 12:43 -0700, Casper Shyr wrote: > Hello, > I am wondering about the difference between multiallelic-caller and > consensus-caller. The documentation states multiallelic-caller overcomes some > limitations in the consensus caller, but what exactly are these limitations? > More specifically, if one is working with human genomes/exomes looking for > rare disease-associated variants, which caller is better? > > Cheers, > Casper > > > ------------------------------------------------------------------------------ > Comprehensive Server Monitoring with Site24x7. > Monitor 10 servers for $9/Month. > Get alerted through email, SMS, voice calls or mobile push notifications. > Take corrective actions from your mobile device. > http://p.sf.net/sfu/Zoho > _______________________________________________ > Samtools-help mailing list > Samtools-help@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/samtools-help -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. ------------------------------------------------------------------------------ Comprehensive Server Monitoring with Site24x7. Monitor 10 servers for $9/Month. Get alerted through email, SMS, voice calls or mobile push notifications. Take corrective actions from your mobile device. http://p.sf.net/sfu/Zoho _______________________________________________ Samtools-help mailing list Samtools-help@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/samtools-help
