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Overview

SGA is a de novo assembler designed to assemble large genomes from high coverage short read data. It is designed as a modular set of programs, which are used to form an assembly pipeline. A description of the SGA design is found here.

First steps

The source directory contains examples of real assemblies using SGA. You should read these scripts or (better) download the data for one of the smaller genomes (I recommend the C. elegans data set) and run the example yourself. This will help you get understand the SGA pipeline so you can run the assembler effectively on your own data.

FAQs

It is highly recommended that you read the SGA FAQ page.

Further help

There is a mailing list for sga on google groups.