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Hello,
NCBI has listed a COG category of [X] Mobilome: prophages, transposons. But I do not find a sing X assigned by eggnog mapper in several genomes from several different species that I know hav…
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Hi Felipe,
Could you help with this issue I've got when running bacannot everything went just fine except the pipeline arrives that step. I tried twice with differents genomes and it fails at the sam…
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Hi Jiarong,
Thank you for creating this amazing tool.
I have been using it on my dataset of Illumina-sequenced bacteria (56 very similar _Campylobacter jejuni_, isolated from the same location an…
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An email discussion about phage processes stimulated me to make this issue, but I also wonder if it applies to non-viral situations.
Looking at the ontology, we have terms like
GO:0039634 killing b…
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Is there a minimum number of common k-mers to have a high quality host prediction or is 1 accurate?
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Hi Felipe,
Could you help with this issue I've got when running bacannot o my genomes, everything went just fine except the report step. I tried with my old genomes (which were successful at the time…
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Dear chg60,
I have a problem about the result, I have installed DEPhT by conda, and download the model to server. And then searched prophage on my data, but the result contained .gbk and .csv file o…
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Hi, I have a question. Not a specialist on prophages but my understanding was that the attL/attR sequences were always flanking the prophage regions. I got the following `prophage_coordinates.tsv` fi…
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I'm a little confused as to the classification of lytic versus lysogenic and I didn't see in the preprint how this determination is made.
In the output files I see lytic viruses that are "fragment…
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Hello,
I was wondering how VIBRANT predicts the lifestyle of viruses? What is the training data (marker proteins or whatever) you used to predict lifestyle? I don't find the detailed information i…