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Table 1 NanoARG modules, parameters, and methods

From: NanoARG: a web service for detecting and contextualizing antimicrobial resistance genes from nanopore-derived metagenomes

Module

Database

Method

Parameters

ARGs

DeepARG-db

DeepARG-LS

--iden 25 --prob 0.5 --cov 0.4

MGEs

NCBI-NR + I-VIP

Diamond

--evalue 1e-5 --iden 25 --nk 15000

MRGs

BacMet

Diamond

--evalue 1e-5 --iden 25 --nk 15000

Taxonomy

Bacteria, Aarchaea, Viruses, Human

Centrifuge

default

Pathogens

ESKAPE + WHO

Pattern matching to NCBI Taxa ID

–NA