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### The following is the code I ran and the error situation. Has anyone encountered this issue? BioPython version is 1.77, and PhiSpy version is 4.2.21
(PhiSpy) [kxy@zju out]$ PhiSpy.py my_output.g…
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Hi!
I'm encountering a problem when running phispy (conda environment) with the provided test files.
The analysis runs with no problems and I can see that it identifies prophages but then the out…
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The program throws an exit code 1 instead of 0 when it fails to find any prophage regions.
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I tried running your Prophage_Tracer for the first time today and I got this error
awk: cmd. line:1: fatal: division by zero attempted
I followed your directions to index with bwa, then map with b…
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When I was running VirSorter, it didn't report any error. But when the program finished, one result file, namely VIRSorter_global-phage-signal.csv hadn't any content. Can someone help me?
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Hi Simon,
Firstly, thank you for this tool - it has been of great use in a viral identification pipeline. I had a question about the virome decontamination setting for the CyVerse implementation o…
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I have noticed that the chloroplast and mitochondrion do not assemble with hifiasm. I am not expecting to get the full plastid assembled correctly, but I don't see anything. When I align the corrected…
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>hundreds or thousands of “extra” genes per genome,
but black box is black box
1)
for example
PGAP report 434 genes on plasmid
https://www.ncbi.nlm.nih.gov/protein?LinkName=nuccore_protein&fr…
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I have been attempting to run the DEPtH program on a few myco genomes to understand the software and I am encountering an issue with the html output. Regardless of the genome I get the following erro…
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Hi Mike,
Thank you for Cenote-Taker3! We liked Cenote-Taker2 and are excited to explore your update. In our early runs we've noticed some examples of extra-long regions (>2,000,000 bases) being in…