Assessing Ion Torrent assembly quality with Mauve Assembly Metrics
I wanted to assess the quality of the assemblies that you might expect to get from assembling Ion Torrent reads de novo for bacterial genomes (see my last post for the initial results of assembly). By good fortune, Aaron Darling of Mauve fame just published a manuscript in Bioinformatics describing Mauve Assembly Metrics. For those [...]
First look at Ion Torrent data: De novo assembly
Well we’ve had our Ion Torrent for nearly 6 weeks now, but we haven’t yet run it. A combination of factors have impeded our progress. After waiting for installation there have been various changes to the protocols and reagents, plus we needed to buy some more equipment to make libraries (a Bioruptor, for shearing). Our [...]