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lecture_notes:05-03-2010 [2010/05/04 04:59] svasili |
lecture_notes:05-03-2010 [2010/05/09 01:11] (current) galt Putting the Heng Li and R. Durbin paper in a proper reference format with link |
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- Biological tricks: | - Biological tricks: | ||
- c->b->a->b'->d | - c->b->a->b'->d | ||
- | - an inversion of b->a->b' turns the scaffold into c->b->a'->b'->d...(I think this should be c->b'->a'->b->d) | + | - an inversion of b->a->b' turns the scaffold into c->b->a'->b'->d... Note that flipping b->a->b' reverses and complements the sequences, so that it becomes (b')->a'->b' or b->a'->b'. |
Burrows-Wheeler Transform (BWT) | Burrows-Wheeler Transform (BWT) | ||
Line 95: | Line 95: | ||
- R-("O") = c(O) + O("O") + 1 = 6 | - R-("O") = c(O) + O("O") + 1 = 6 | ||
- R_("GO") = | - R_("GO") = | ||
- | - Kevin recommends reading the paper. [Fast and Accurate Short read alignment with Burrows-Wheeler Transform, Heng Li and Richard Durbin, bioinformatics 2009] | + | - Kevin recommends reading the paper. **Fast and accurate short read alignment with Burrows-Wheeler transform.**[(cite:bwa>Heng Li and Richard Durbin.\\ |
+ | Bioinformatics. 2009 Jul 15;25(14):1754-60. Epub 2009 May 18.\\ | ||
+ | Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, CB10 1SA, UK.\\ | ||
+ | doi:[[http://dx.doi.org/10.1093/bioinformatics/btp324|10.1093/bioinformatics/btp324]] | ||
+ | )] | ||
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+ | ===== References ===== | ||
+ | <refnotes>notes-separator: none</refnotes> | ||
+ | ~~REFNOTES cite~~ | ||
+ |