Antimicrobial resistance Genome batch analysis
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23 months ago
Mup123 • 0

Hi,

If we have 100 bacterial whole genome sequences for analyzing antimicrobial resistance genes and what is the best tool to do batch analysis. (I wish to compile the results in a single heatmap)

I have checked with card (The Comprehensive Antibiotic Resistance Database), but it accepts only one sequence at a time.

Is there any commands available to solve this problem in CARD ?

Thank You!

AMR database CARD • 845 views
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Can you specify the organism?

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Multiple strains of Klebsiella pneumoniae.

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23 months ago
jv ★ 1.8k

Generally when tools are made available via a web server they aren't setup to support the execution of large batches of jobs. You can however download and install the RGI software to a computer or server that you have access to which would allow you to run your analysis in a more high-thoughput (not to mention more reproducible) fashion.

https://card.mcmaster.ca/download

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