SGA

Application data
Created by	Jared Simpson, Richard Durbin
Principal bioinformatics method(s)	Sequence assembly
Technology	Illumina
Created at	The Wellcome Trust Sanger Institute
Maintained?	Yes
Input format(s)	FASTQ
Output format(s)	FASTA
Programming language(s)	C++
Licence	GPLv3
Operating system(s)	Linux

Summary: SGA is a de novo assembler designed to assemble large genomes from high coverage short read data.

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Description

It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads.

Links

• SGA Source code [ edit link ]
• SGA Description [ edit link ]

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References

1. . 2005. Bioinformatics
2. . 2010. Bioinformatics (Oxford)

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