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====== Review Articles ====== ===== Assembler review articles ====== * ** Assembly algorithms for next-generation sequencing data **[(cite:assem_alg>Jason R. Miller, Sergey Koren, Granger Sutton. Assembly algorithms for next-generation sequencing data. //Genomics//, In Press, Corrected Proof, Available online 6 March 2010. ISSN 0888-7543. doi:[[http://dx.doi.org/10.1016/j.ygeno.2010.03.001|10.1016/j.ygeno.2010.03.001]].)] \\ Covers these assemblers: SSAKE, SHARCGS, VCAKE, Newbler, Celera, Euler, Velvet, ABySS, AllPaths, and SOAPdenovo. \\ Compares de Bruijn graph to overlap/layout/consensus. ===== Technology review articles ====== * ** Computational methods for discovering structural variation with next-generation sequencing. **[(cite:tech>Medvedev P, Stanciu M, Brudno M. Computational methods for discovering structural variation with next-generation sequencing. //Nat Methods//,2009 Nov 6 (11 Suppl):S13-20.http://www.nature.com/nmeth/journal/v6/n11s/abs/nmeth.1374.html)] \\ A good 2009 review article **on the state of paired-end sequencing**. Includes some discussion of the difference between mate-pair and paired-end reads, the many types of of contig linkages they can produce, as well as discussion about data prossessing and available tools. ===== References ===== <refnotes>notes-separator: none</refnotes> ~~REFNOTES cite~~