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For plasmid you will not get a good result if you just use the default settings.
I would recommend getting GENBANK files (.gbk or .gb) of all the plasmids that are similar to your one.
Say you g…
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Running phanotate on some phage gives me this error. The below is from [Hubei odonate virus 11](https://www.ncbi.nlm.nih.gov/nuccore/NC_032956):
```bash
(phan.env) [jmeppley@tyrosine phanotate]$ p…
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Hi PlasX team,
Thank you for providing this insightful software. I could manage to run PlasX over my data (set of open reading frames) with the Pfam database. However, when I try to include the dow…
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It would be great to have an example project on how to use bazel_rules_hdl for OpenROAD and asap7.
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Dear Brian
I am getting the following error message at the very last step of trinotate to write the annotation report. Would you mind helping me out?
I am running the exact codes you have avialabl…
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Hi All,
I am facing a problem regarding Trinotate annotation.
I have generated a transcript annotation file following Trinotate pipeline after de novo transcript using Trinity. In annotation there a…
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I am getting the following error message while using running synthesis in ORFS. I am using the `synlig` binary file to read Systemverilog files. A while ago, I was able to use the `synlig` systemveri…
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Hello,
First of all thank you for making such an amazing program, secondly I was wondering if you could provide some advice on how to handle a very large query database. I have several terabytes th…
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Hello,
I keep on getting a "GFF file is not in GFF3 file format!" error while running `samtools mpileup` + `ivar variants`. This is the command line:
```bash
samtools mpileup \
-aa -A -B \
--…
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The select feature types part of the current region search is very easy to understand, it's just a bunch of checkboxes.
Can we make the region search tool on the new UI similar?