simroux

Hi ! So this is something we've seen in the past: if your dataset is composed mostly of viruses (~ 30% or more), then "virome decontamination" works better than "regular"...

Hi Jarrod, That is a good question. The "warning" message is a recent addition, so I'm reopening the issue as it may be useful to a number of folks. My...

Hi Jarrod, Thanks for the additional information :-) Here is how I typically look at these cases: - The file "VIRSorter_affi-contigs.tab" in the folder "Metric_files" has the gene-by-gene annotation that...

Hi Jarrod, "filtered through 0.22 micro filters" is the key thing here, and the results make a lot of sense. Metagenomes from cells collected on 0.22 micro filters look like...

This seems to be a common conda error without clear solution :-/ https://www.google.com/search?client=opera&q="error+while+loading+shared+libraries%3A+libssl.so.1.0.0"+conda&sourceid=opera&ie=UTF-8&oe=UTF-8 Looks like maybe trying to add manually the openssl package to the conda environment would work ?...

Thanks for sharing! I'll leave the issue open so that it's easier for people to find this thread.

Hi Elly, The easiest way to fix this error is typically to check if the original lib directory (./lib/perl5/site_perl/5.22.0/) is in the list of directories that perl looks into for...

Right, the folder /Users/kimde/opt/anaconda3/envs/virsorter/lib/site_perl/5.26.2/darwin-thread-multi-2level only works for this specific user. As specified to Elly above, the best way to solve this is to add the folder "..XMF/USER/luoyunzhe/software/miniconda3/envs/virsorter/lib/perl5/site_perl/5.22.0" to your Perl...

Hi Ruben, Eukaryotic viruses are not well handled by VirSorter, they will typically show up in Categories 3 or 6 because of low proportion of genes with a hit in...

Hi Mike & Megan, Megan is right about the use of "--cp" on the command line, it will be the same thing as adding an "Additional viral sequence to be...