 | RSmatch |
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RSmatch Ranking & Summary
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- License:
- Freeware
- Publisher Name:
- Bin Tian
- Publisher web site:
- http://exon.umdnj.edu/
- Operating Systems:
- Mac OS X
- File Size:
- 850 KB
RSmatch Tags
RSmatch Description
Aligning RNA secondary structures and finding RNA motifs RSmatch is a free and easy to use package designed to provide a light-weight approach to compare RNA structures, thereby uncovering functional structure elements. Compared with other tools for RNA structure comparison, RSmatch is fast, requiring quadratic time determined by the sizes of two given structures. RSmatch uses two scoring schemes, i.e. position independent and position dependent schemes. The position independent scheme entails two scoring matrices, one for single-stranded regions and the other for double-stranded regions. This scoring scheme is used in pair-wise comparisons and database searches. The position dependent scheme, also known as profile, scores individual structure positions and is used by the multiple structure alignment and iterative database search functions. RSmatch provides both global and local alignment options even though the latter is more useful in most cases. In addition, RSmatch can take pattern-based structures as input.NOTE: Soem examples are available HERE. Requirements: · Java
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