CONTIGuator is a Python script whose purpose is to speed-up the bacterial genome finishing process and to obtain a first insight of the genome structure using the artemis comparison tool (ACT), as well as gap-closing PCR primers using primer3. The program can be used using rerence genomes with more than one replicon.
Features
Online version
From the project website there's a link to the CONTIGuator web server
Code
The source code can be found at github
Documentation
The project website contains a section with the explanation of the workflow and program's parameters, as well as examples
Hi div,
yes, CONTIGuator should be able to help you with that, granted that you have a closed reference genome (which should be the case for S. aureus). You also might want to try a new multiple genomes scaffolder called Medusa, which uses more than one reference genome to scaffold the contigs.
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The site looks awesome, makes me want to use the tool - nice job!
PS. the title is a bit hard to read
The magic of twitter bootstrap :)