Monthly Archives: February 2011

What to do about contamination

Suppose that you’re trying to sequence species X, but you’ve got contamination from other species mixed in. What can be done about this? Let’s suppose that the other species are similar to species in Genbank. Then you have two main … Continue reading

Posted in Misc | Leave a comment

New lab method to reduce bias at high GC

Here it is: Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries. We strongly recommend that this method be used to make libraries for assembly.

Posted in Misc | Leave a comment

Improved handling of polymorphism

Revision 35887 introduces some changes that improve the performance of ALLPATHS-LG on polymorphic data sets. On a 10 Mb human test region, the N50 contig size is now 81 kb, roughly double what it was before. More changes are in … Continue reading

Posted in Release | Leave a comment