# Banana Slug Genomics

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archive:review_articles

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A PCRE internal error occured. This might be caused by a faulty plugin

====== 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~~

## Discussion

, 2010/04/11 22:46

References should use the refnotes plugin (see the style page)

, 2010/04/13 00:40

The formatting has been fixed; everyone please follow the new format. Use the level 2 header ( ====== ) for the categorization of review articles (e.g. Assembler review articles) and use bold for paper titles followed by a RefNotes citation for that paper (the paper titles use bold since the heading syntax does not work when followed by a RefNotes citation). When adding new review articles, please place them in alphabetical order. Any notes or information about the review article follows the title and reference for the paper.

, 2010/04/09 06:27

The link works for me, but then I created it.

You can also try the link that appears further down in the citation:

Of course, if you are off-campus, you will need to use OCA Bookmarkelet from library with your library card, or some other UCSC library mechanism.

, 2010/04/08 23:30