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SmithWaterman

Fast local sequence alignment for the masses!

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Description

An implementation of the Smith-Waterman local sequence alignment algorithm.

See our sister project global alignment using Needleman-Wunsch:
http://sourceforge.net/projects/needlemanwunsch/

SmithWaterman Web Site

Features

  • Affine gap penalties
  • Coloured ouput
  • Reads FASTA, FASTQ and plain sequence files (inc. gzip'ed files)
  • Preset DNA/Protein substitution matrices (PAM/BLOSUM etc)
  • Can load penalty substitution matrices
  • Portable C code that can be used in other bioinformatics projects

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Additional Project Details

Intended Audience

Education, Science/Research

User Interface

Command-line, Console/Terminal

Programming Language

C, C++

Registered

2011-12-14
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