Is there any open-source Illumina bacterial genome mapping and annotation website?

Question

[bioinf_ukraine]

Is there any open-source Illumina bacterial genome mapping and annotation website, using RAST or similar in an automated way. Need software codes to develop a similar service. Thank you.

[GenoMax]

You can find NCBI's prokaryotic annotation pipeline here: https://github.com/ncbi/pgap . There is also Prokka: https://github.com/tseemann/prokka

[bioinf_ukraine]

I have a Prokka, however I need to send a fasta contigs to the RAST via the Linux Shell or a Python code, is it possible somehow?

[GenoMax]

Looks like there is a way to batch submit jobs. Have you looked at this page?

Edit: Unfortunately the link for the submit script on that page appears to be broken.

[Ram]

NOTE: Comments verifying the authenticity of the post have been cleaned up.

Answer 1

[h.mon]

The page http://www.theseed.org/servers/ mentions there is a package called "RASTserver.pm", you can search for this package and find more information. Also, the RAST blog has a post about the The RAST batch interface.