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ncbi / amr

AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
https://www.ncbi.nlm.nih.gov/pathogens/antimicrobial-resistance/AMRFinder/
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Minor typo in wiki #121

Closed jvhagey closed 1 year ago

jvhagey commented 1 year ago

Hi,

Just wanted to flag a very minor issue. In the wiki under --organism option in the Organism Option column Burhkholderia_pesudomallei is spelled incorrectly and should be Burkholderia_pseudomallei. I just copied and pasted for a script and ended up with an error. Thanks!

vbrover commented 1 year ago

Thank you! The correct and complete list of organisms can be obtained by

$ amrfinder --list_organisms -q
Available --organism options: Acinetobacter_baumannii, Burkholderia_cepacia, Burkholderia_pseudomallei, Campylobacter, Citrobacter_freundii, Clostridioides_difficile, Enterobacter_cloacae, Enterococcus_faecalis, Enterococcus_faecium, Escherichia, Klebsiella_oxytoca, Klebsiella_pneumoniae, Neisseria_gonorrhoeae, Neisseria_meningitidis, Pseudomonas_aeruginosa, Salmonella, Serratia_marcescens, Staphylococcus_aureus, Staphylococcus_pseudintermedius, Streptococcus_agalactiae, Streptococcus_pneumoniae, Streptococcus_pyogenes, Vibrio_cholerae
evolarjun commented 1 year ago

Hi @jvhagey,

It was my fat fingers, but it's now fixed thanks to you.