simroux

Hi Sara, Broadly, in the "VIRSorter_global-phage-signal" file, each line will represent a new prediction / viral region. Here, you are correct, two different prophages have been detected, one on contig...

Hi ! Not sure what's inconsistent here. The contig itself (NM_tailings_Scaff622018) is detected as circular (i.e. it has direct terminal repeats). Then within this contig, a specific region (6603 to...

Hi, When processing a dataset composed mostly (or in this case, exclusively) of viruses, you should use the "Virome decontamination" mode of VirSorter, i.e. option "--virome". This should make more...

Hi Jarrod, The good news is that it's only a warning and should not have any impact on the result itself. Not so good news is that I was sure...

Thanks for testing, I'll look into it. I don't think this is due to Bio::Seq, so the fix should not have caused any issue. I think I know why this...

Hi Jarrod, I have a hard time reproducing the warning, could you share an example of a sequence id for your contig, and or some part of your input file...

Hi Jarrod, Sorry, it seems like enclosing files to email reply doesn't work as intended (at least I don't see a file linked to your last reply). If easier, you...

Hi Jarrod, Thanks for the file ! I think I've found it, and as expected it has 0 impact on the results themselves (this warning came from a last step...

Thanks for the tip !

Hi Matthias, Did you run with the "--virome" option ? This is needed when providing VirSorter with an input file which is mostly (in your case entirely) viral. The reason...