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Hello,
A new class A beta-lactamase, named CAE-1, was described and characterized in a recent paper (https://doi.org/10.1038/s41598-023-28312-w). However, only the complete sequence of the plasmid …
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### Week 1 - Get to know the community
- [X] Join the communication channels
- [X] Open a GitHub issue (this one!)
- [x] Install the Ersilia Model Hub and test the simplest model
- [x] Write a motiva…
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- It looks like all strains in the antimicrobial resistance dataset are annotated with rank 'species' and their parent rank 'genus'. The taxids correspond to species.
- Maybe in this case the NCBI_I…
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### What container needs an update?
I know all of these containers are awesome, but...
I would like to add AMRFinderPlus for the Docker workshop (assuming this is okay - not sure if additions are …
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### What container needs an update?
https://github.com/ncbi/amr/releases/tag/amrfinder_v3.11.2
Would be great to get a new docker image for this new version BUT we should wait until a new database…
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I'm trying to run ariba on my samples after having already run the basic pipeline for assembly.
```
bactopia --R1 SEQS_R1.fastq.gz \
--R2 SEQS_R2.fastq.gz \
--sample SAMPLE_NAM…
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## Template Fixes:
- N/A at this time.
## Specification Changes:
| Field | Change |
| --- | --- |
| `antimicrobial_agent_name` | NEW PICKLIST items: Enrofloxacin [CHEBI:35720], Norfloxacin …
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Hi Arjun and team,
I have a quick question - is there a way with the executable `amrfinder` (or otherwise) to install an older version of the amrfinderplus database? For example, if I wanted to rep…
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Hello,
I have just installed the AMRfinder Plus through Bioconda. Once I try to update the database an error occurs:
% amrfinder -u
Running: amrfinder -u
Software directory: '/Users/utilizado…
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I want to use the output of `makeSignatures` for bugphyzzExports. I initially used it incorrectly, which gave the following message:
```
> makeSignatures(tax.level = "species")
Error: You need to…