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exonerate
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README

README 581 B
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  1. Exonerate: a generic tool for sequence alignment
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  3. Exonerate is a generic tool for pairwise sequence comparison. It allows
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  4. you to align sequences using a many alignment models, either exhaustive
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  5. dynamic programming or a variety of heuristics.
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  7. The Exonerate package comes with a selection of utilities for performing
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  8. simple manipulations quickly on fasta files beyond 2Gb.
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  10. Many of the algorithms in exonerate are described in:
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  11. Slater GS and Birney E (2005) Automated generation of heuristics for
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  12. biological sequence comparison. BMC Bioinformatics 6:31;
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  13. doi: 10.1186/1471-2105-6-31
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