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Hi Rob,
I was really excited to see that someone is doing a comparison of different prophage tools. If you are still open to adding more tools for comparison, I hope you try my tool [Cenote-Taker 2…
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I'm encountering an issue where certain identified regions from the Phaster analysis of my sequence (available at https://phaster.ca/submissions/NC_019418) are not appearing in the output, despite bei…
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Hi Simon,
I am new in the field of prediction of viral sequences. I am basically interested in detecting the number of prophages from bacterial genomes (including MAGs) and tested your VirSorter so…
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Hi,
I recently tried eggnog-mapper website to annotate my bacterial genome for COG analysis. From the resulting output I was using the column of COG_categories to calculate the number of genes annota…
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https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0223364
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Hi, I have four more questions.
1. You defined five types inovirus in the result files: prophage, complete, integrase, DR, tRNA. But the type, complete, seems have no att sites. Are the complete …
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When I run the script "Identify_candidate_fragments_from_gbk.pl" , I got an exception like this:
------------- EXCEPTION -------------
MSG: asking for tag value that does not exist locus_tag
STACK …
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Dear author, I want to use DeepVirFinder on my metagenomics samples.
There are many contigs over 3000 bps(some about 10000-50000 bps).
And how can DeepVirFinder ensure the accuracy of long contig pr…
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Thanks for the nice tool! Is it possible for this tool run against the customed microbial genomes?
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Hello,
According to the paper, INPHARED should only include genomes producing virions:
> We also assume the genomes are from phages that have been shown to produce virions and are not prediction…