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I encountered an issue when running the metaVF.py script in the MetaVF toolkit. Specifically, the makeblastdb command executed within the Snakemake workflow fails to generate all expected output file…
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* pharokka version:1.4 & 1.5.1
* Python version: Python 3.10.8
* Operating System: Rocky Linux 8.7 (Green Obsidian)
### Description
Hi @gbouras13, When trying to run pharokka_proteins.py in a se…
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Term PATHGO:0000023 'disruption of action potential propagation' has a comment that states "inconsistent as a subclass as this is a consequence of ion channel activity modulation; should be moved". T…
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We need to be able to model pathogenicity.
The first decision we need to make is whether to use the PATO (PATO:pathogenicity and inheres in some 'whole organism') vs the GO pattern ('increased rate…
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Should we have a class for disorders that involve toxins, but not an infection or infectious disorder?
Should this be in Bacteria IDO? I am going to put such a term in BIDO for now, conditionally. …
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- think about how to write intro
- take notes on interesting/relevant papers
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Hi,
I am interested in using BMiner with BTyper3 results, but when I upload the BTyper3 final results on the RStudio interface all the tabs in the Shinyapp report no data for any gene/feature. Howe…
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Hi
It is about getting Abricate output to record the BLAST bit scores. Currently we are engaging with the European Food Safety Authority (EFSA) on guidelines for WGS based reports, and they were w…
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### Task 2: Define 5 exact questions/queries you would like to solve.
I'd like you to develop 5 "Example User Queries" which solve ask a real biological question, and each one should have a dependency…
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This Issue is for discussion and tracking of mechanism of action experiments for series 2. We are currently in the process of planning the details of the first experiments and will update accordingly.