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PATRIC3 / patric3_website

Legacy PATRIC Website (JBoss Portal Version)
MIT License
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Reorder contigs-start with DnaA first #1909

Open ARWattam opened 6 years ago

ARWattam commented 6 years ago

We often get asked this. Users have compared to reference using Mauve and know how the contigs are ordered. They would like to be able to do this in PATRIC without having to do the manual, tedious process.

JoshuaVSherman commented 6 years ago

give to bob later like maybe 2 weeks, involves assembly annotation

olsonanl commented 6 years ago

Does someone have a specific plan for how this is supposed to work?

AllanDickerman commented 5 years ago

For the case of a circular genome assembled to closure by Unicycler, it will rotate the genome to start at an agreed-upon start gene. The program has a list to use, I'm sure DnaA is one.

For non-closed genomes, e.g. multiple contigs, I don't think there is a solution.

So I think this will be solved by the new assembler system.