---
name: "sga-align"
section: "1"
platform: "linux"
package: "sga"
version: "0.10.15-7+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/sga-align"
---

# sga-align(1)

align reads to contigs

## NAME

sga-aligm - align reads to contigs

## SYNOPSIS

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

## DESCRIPTION

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.

## OPTIONS

- \--name=STR

  Use STR as the basename for the output files.

- \-t,--threads=N

  Use N threads when running bwa.

## AUTHOR

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