Difference between revisions of "SynFind"
From CoGepedia
(Created page with 'SynFind identified syntenic regions against any set of genomes given a gene in one genome. The primary algorithm of this analysis is SyntenyScore written by Haibao Tang.') |
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| + | ==Overview== | ||
SynFind identified syntenic regions against any set of genomes given a gene in one genome. The primary algorithm of this analysis is SyntenyScore written by Haibao Tang. | SynFind identified syntenic regions against any set of genomes given a gene in one genome. The primary algorithm of this analysis is SyntenyScore written by Haibao Tang. | ||
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| + | ==Options for Synteny Score== | ||
| + | * '''Window Size''': synteny window size [default: 40] | ||
| + | * '''Cutoff''': the minimum number of anchors to call synteny [default: 0.1] | ||
| + | * '''Scoring Function''': scoring scheme, must be one of ('collinear', 'density') [default: collinear] | ||
Revision as of 17:36, 4 February 2012
Overview
SynFind identified syntenic regions against any set of genomes given a gene in one genome. The primary algorithm of this analysis is SyntenyScore written by Haibao Tang.
Options for Synteny Score
- Window Size: synteny window size [default: 40]
- Cutoff: the minimum number of anchors to call synteny [default: 0.1]
- Scoring Function: scoring scheme, must be one of ('collinear', 'density') [default: collinear]
