Summary table

Key	Value
category	assembly-based
platform	illumina
open source	true
reproducible	true

Database

ResFinder

Protocol

• Step 1

Genomic DNA was sequenced on the Illumina HiSeq 2000 platform using 100 bp PE

• Step 2 Velvet v1.2.09 was used for de novo genome assembly

• Step 3

Antimicrobial resistance genes were detected through the ResFinder database using thresholds of 95.0% and 90.0% for nucleotide identity and sequence coverage, respectively.

Citation

The paper(s) documenting this protocol:
*Musicha P et al. 2019

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