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SGA-ALIGN(1) User Commands SGA-ALIGN(1)


sga-aligm - align reads to contigs


sga-align [options] <contigs file> <input files>


The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads.

SGA is a de novo assembler for DNA sequence reads. 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.


Use STR as the basename for the output files.
Use N threads when running bwa.


This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

September 2016 sga-align 0.10.15