SmithWaterman

MOVED TO GITHUB: https://github.com/noporpoise/seq-align

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

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

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

Project Samples

Project Activity

See All Activity >

License

GNU General Public License version 3.0 (GPLv3)

Follow SmithWaterman

SmithWaterman Web Site

Other Useful Business Software

Keep company data safe with Chrome Enterprise

Protect your business with AI policies and data loss prevention in the browser

Make AI work your way with Chrome Enterprise. Block unapproved sites and set custom data controls that align with your company's policies.

Download Chrome

Rate This Project

User Reviews

Be the first to post a review of SmithWaterman!

Additional Project Details

Operating Systems

BSD, Linux, Mac

Intended Audience

Education, Science/Research

User Interface

Command-line, Console/Terminal

Programming Language

C, C++

Related Categories

C++ Bio-Informatics Software, C Bio-Informatics Software

Registered

2011-12-14

Similar Business Software

MEGA

MEGA (Molecular Evolutionary Genetics Analysis) is a powerful and user-friendly software suite designed for analyzing DNA and protein sequence data from species and populations. It facilitates both automatic and manual sequence alignment, phylogenetic tree inference, and evolutionary hypothesis...

See Software
SnapGene

Accurately design and simulate cloning procedures. Test complicated projects, catch errors before they happen, and obtain the right constructs the first time. Cloning is easier when you can see what you are doing. The intuitive interface offers you unparalleled visibility into your work,...

See Software
GenomeBrowse

This free tool delivers stunning visualizations of your genomic data that give you the power to see what is occurring at each base pair in your samples. GenomeBrowse runs as a native desktop application on your computer. No longer do you have to sacrifice speed and interface quality to obtain a...

See Software
Genome Analysis Toolkit (GATK)

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. The GATK...

See Software
Galaxy

Galaxy is an open source, web-based platform for data-intensive biomedical research. If you are new to Galaxy start here or consult our help resources. You can install your own Galaxy by following the tutorial and choosing from thousands of tools from the tool shed. This instance of Galaxy is...

See Software
Geneious

Geneious Prime makes bioinformatics accessible by transforming raw data into visualizations that make sequence analysis intuitive and user-friendly. Simple sequence assembly and easy editing of contigs. Automatic annotation for gene prediction, motifs, translation, and variant calling. Genotype...

See Software