ARGs-OAP

Public Server:	ARGs-OAP Galaxy Server (HK)
Scope:	Domain Specific
Summary:	Fast annotation and classification of antibiotic resistance gene-like sequences from metagenomic data.

Comments

Integrated "ARDB and CARD, the two most commonly used databases. SARG was curated to remove redundant sequences and optimized to facilitate query sequence identification by similarity. A database with a hierarchical structure (type-subtype-reference sequence) was then constructed to facilitate classification (assigning ARG-like sequence to type, subtype and reference sequence) of sequences identified through similarity search." The server utilizes the SARG DB and a hybrid functional gene annotation pipeline to do fast annotation and classification of ARG-like sequences from metagenomic data.
Source code is available on [GitHub](https://github.com/biofuture/Ublastx_stageone).

Please refer to the [manual page for ARGs-OAP](https://github.com/biofuture/Ublastx_stageone)

[ARGs-OAP v2.0 with an Expanded SARG Database and Hidden Markov Models for Enhancement Characterization and Quantification of Antibiotic Resistance Genes in Environmental Metagenomes](https://doi.org/10.1093/bioinformatics/bty053), Xiaole Yin, Xiao-Tao Jiang, Benli Chai, Liguan Li, Ying Yang, James R Cole, James M Tiedje, Tong Zhang. *Bioinformatics*, bty053, doi:10.1093/bioinformatics/bty053, 02 February 2018
[ARGs-OAP: online analysis pipeline for antibiotic resistance genes detection from metagenomic data using an integrated structured ARG-database](https://doi.org/10.1093/bioinformatics/btw136), Ying Yang, Xiaotao Jiang, Benli Chai, Liping Ma, Bing Li, Anni Zhang, James R. Cole, James M. Tiedje, and Tong Zhang. *Bioinformatics* (2016) 32 (15): 2346-2351. doi: 10.1093/bioinformatics/btw136
ARGs-OAP tagged publications in the Galaxy Publication Library