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The 'https://github.com/ncbi/amr/wiki/Curated-organisms' states 'Cronobacter' in list but its usage in amr throws error- it works fine without mentioning its name in '-O' though!
amrfinder --annota…
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We need to create a way to make such tables machine readable.
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@kehammond has suggested we make training tutorials to cover the main paper types
**Receptor decoys** (PMID:30220500) Suppression of Plant Immunity by Fungal Chitinase-like Effectors. #18
**R-A…
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How would it be possible to have a summary made out of a chunk? With a prompt named: `summary_gen.yaml`
**_EDIT: While I had trouble getting my head around the code in `./original`, I started from …
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### Operating System
Other Linux (please specify below)
### Other Linux
ubuntu 18.04
### Workflow Version
v2.9.3-g6636bc9
### Workflow Execution
Command line (Cluster)
### Other workflow execu…
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Bug report by @irosenboom
It was reported for 2x150bp Novaseq reads that bwa mem performed alignments with extensive softclipping.
For example, some alignments were of 18bp with 82 bp simply so…
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If it's a memory issue, it would be nice if it told me that. If it's a code issue, it would be nice if it supported higher values. Thanks for writing this software.
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GTDB complete genomes
time genome_updater.sh -d "refseq,genbank" -g "archaea,bacteria" -f "genomic.fna.gz" -o "GTDB_complete" -M "gtdb" -t 12 -m -L curl -i
cd GTDB_complete/2024-01-30_19…
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Hello,
I am trying to extract some sequences from a genome file. I have read in the genome into RStudio using readDNAStringSet, and then converting it to just a DNAString (its a bacterial genome, so…
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Please provide as much information as you can:
* **Suggested term label:**
* symbiont-mediated suppression of host-directed shutoff of host translation
* **Definition (free text)**
* **…