lecture_notes:04-13-2011
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lecture_notes:04-13-2011 [2011/04/15 19:15] eyliaw [De Bruijn Graphs] |
lecture_notes:04-13-2011 [2011/04/15 19:16] eyliaw [De Bruijn Graphs] |
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| Specifically, the de Bruijn graph breaks each read into words and paths through the words, mapping new reads to form a graph structure. Velvet then simplifies this graph by removing unjoined tips and reducing parallel strands into the strand with the maximum coverage (this error corrects for mismatched bases). Velvet leaves loops unresolved in the final structure, as these represent repeat regions. [(cite:Velvet>Zerbino, D. and Birney, E. | Specifically, the de Bruijn graph breaks each read into words and paths through the words, mapping new reads to form a graph structure. Velvet then simplifies this graph by removing unjoined tips and reducing parallel strands into the strand with the maximum coverage (this error corrects for mismatched bases). Velvet leaves loops unresolved in the final structure, as these represent repeat regions. [(cite:Velvet>Zerbino, D. and Birney, E. | ||
| - | Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 2008. 18: 821-829. doi: 10.1101/gr.074492.107)] | + | Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 2008. 18: 821-829. doi: [[http://dx.doi.org/10.1101/gr.074492.107|10.1101/gr.074492.107]])] |
lecture_notes/04-13-2011.txt · Last modified: 2015/08/20 09:46 by 217.73.208.146
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