Sunday, 10 June 2012

An Explanation of Velvet Parameter exp_cov | Homologus

Appropriate choice of the 'exp_cov' (expected coverage) parameter in Velvet is very important to get an assembly right. In the following figure, we show data from a calculation on a set of reads taken from a 3Kb region of a genome, and reassembling them with varying exp_cov parameters. X-axis in the chart shows the exp_cov and y-axis shows the size of the largest scaffold assembled by Velvet.

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