r2cat (related reference based contig arrangement tool) can be used to order a set of contigs with respect to a single reference genome. This is done by mapping the contigs onto the reference using a q-gram filter. The mapping is visualized in a synteny plot.
Peter Husemann, Bielefeld University
- Linux / Mac / Windows
:: MORE INFORMATION
Husemann, P. & Stoye, J.
r2cat: synteny plots and comparative assembly
Bioinformatics, 2010, Vol. 26(4), pp. 570-571