Michael Shamash

Would be interested in this as well!

Some suggestions for milestone v0.9 prophage prediction: Re. VirSorter: important to include only category 4 and 5 predictions, not 6. Similar to lytic phages with categories 1 and 2 being...

> Yes, category 4 and 5! > > In this context, it might be also interesting to note that there was a bug in VirSorter predicting prophages that are actually...

Hello, I've got the same question as well. In addition, I'd like to use a ".fna" file as well as the Virome database. On CyVerse I can do this using...

Hi MeggyC, Thanks for the command. I will give it a try today. In that case, if I set VirSorter to "decontamination mode" on the command line with my --cp...

Hi Simon, Thank you for the detailed answer. So from my understanding, since the contigs I have are mostly viral, I should be using the "decontamination mode" to reveal more...

Hi Simon, And in that case, I could overwrite the files in the "Phage_gene_catalog_plus_viromes" (since I use viromes not refseq) with the contents from r_0 and it will always include...

Thank you! I will report back if any other issues come back on this topic, otherwise it seems easy enough to do. Cheers. EDIT: it worked perfectly! I copied files...

@liuzhiguai - Thanks for reporting back! I don't think I had those errors during export, but I have made a couple modifications since, and integrated with the current version of...

@liuzhiguai - I didn't change anything on that line, so I'm not sure why it's erroring. Perhaps do a `git pull` on your local YOLOv5 repo, maybe there were some...