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Title: The MG-RAST API explorer: an on-ramp for RESTful query composition

Journal Article · · BMC Bioinformatics
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  1. Argonne National Lab. (ANL), Argonne, IL (United States); Univ. of Chicago, IL (United States)
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Background The MG-RAST API provides search capabilities and delivers organism and function data as well as raw or annotated sequence data via the web interface and its RESTful API. For casual users, however, RESTful APIs are hard to learn and work with. Results We created the graphical MG-RAST API explorer to help researchers more easily build and export API queries; understand the data abstractions and indices available in MG-RAST; and use the results presented in-browser for exploration, development, and debugging. Conclusions The API explorer lowers the barrier to entry for occasional or first-time MG-RAST API users.

Research Organization:
Argonne National Laboratory (ANL), Argonne, IL (United States)
Sponsoring Organization:
National Institutes of Health (NIH); National Science Foundation (NSF); USDOE Office of Science (SC), Biological and Environmental Research (BER)
Grant/Contract Number:
AC02-06CH11357
OSTI ID:
1609142
Journal Information:
BMC Bioinformatics, Vol. 20, Issue 1; ISSN 1471-2105
Publisher:
BioMed CentralCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 4 works
Citation information provided by
Web of Science

References (11)

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MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets journal October 2017
The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools journal January 2012
Fast and sensitive protein alignment using DIAMOND journal November 2014
MG-RAST version 4—lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis journal September 2017
IMG/M: integrated genome and metagenome comparative data analysis system journal October 2016
Metagenomics - a guide from sampling to data analysis journal February 2012
Polinton-like viruses are abundant in aquatic ecosystems journal January 2021
High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing journal January 2021
The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome journal July 2012

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Related Subjects

59 BASIC BIOLOGICAL SCIENCES