Wikiomics:Repeat finding: Difference between revisions
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Revision as of 04:51, 22 March 2010
To simplify, this page assumes eucakariotic genomic DNA repeat finding.
Repeat finding can be divided into two tasks, depending on availability of repeat library:
A) Library exists for a given (or possibly closely related species)
or
B) you construct such library de novo.
Task A is usually a prerequisite step for genome annotation and even blast searches. For newly sequences genomes one should start with B (constructing species specific repeat library).
Detecting known repeats
De novo repeat library construction
For review see: Saha et al. Empirical comparison of ab initio repeat finding programs (2008)