Generalized Pattern Matching download

This tool is designed to solve generalized pattern matching problem, by which we only find a set of sub-patterns, ignoring the gaps in between the sub-patterns. This tool is extremely fast and also has good tolerance to errors.

Features

pattern matching in human genome in less than one minute
hard-disk based k-mers index
complementary dual-seeding
pruned DP in extending
short seed length k has good tolerance of errors
both positive and negative gaps can be handled

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License

Academic Free License (AFL)

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Additional Project Details

Operating Systems

BSD, Linux

Languages

English

Intended Audience

Advanced End Users

User Interface

Command-line

Programming Language

Database Environment

Other API

Related Categories

C Bio-Informatics Software

Registered

2010-08-20

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