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SionBayliss / PIRATE

A toolbox for pangenome analysis and threshold evaluation.
GNU General Public License v3.0
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Adding more genomes to a PIRATE run #38

Closed parul-sharma closed 4 years ago

parul-sharma commented 4 years ago

Hi, I have been using PIRATE for bacterial genomes and was wondering if there is a way to conduct an analysis by adding more genomes to an old run. I used it on 130 genomes in the first run and now have to add a few more genomes for the same analysis. From my understanding, it seems like I have to rerun the whole thing with all the genomes, but is there a way around it? PS: Really appreciate the PIRATE humor. :)

SionBayliss commented 4 years ago

Hi Parul,

Unfortunately adding genomes to a preexisting run is not currently possible (maybe in the future). I am glad that you have a run with only a small number of genomes so that rerunning it isn't too problematic. If you need to find points of comparison between runs you could just use the locus tags of a single (or set) of genomes. The clustering is not deterministic between runs but should be broadly comparable.

All the best, Sion

parul-sharma commented 4 years ago

Thanks for getting back to me Dr Bayliss. Really appreciate your response.