MetaAmp statistics

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Citations per year

Number of citations per year for the bioinformatics software tool MetaAmp
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Tool usage distribution map

This map represents all the scientific publications referring to MetaAmp per scientific context
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Associated diseases

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Popular tool citations

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Protocols

MetaAmp specifications

Information


Unique identifier OMICS_18130
Name MetaAmp
Interface Web user interface
Restrictions to use None
Input data A metagenomic sequence.
Input format Fastq, Fasta
Programming languages Javascript, Perl
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Maintainer


  • person_outline mstrous

Publication for MetaAmp

MetaAmp citations

 (4)
library_books

Assessing species biomass contributions in microbial communities via metaproteomics

2017
Nat Commun
PMCID: 5691128
PMID: 29146960
DOI: 10.1038/s41467-017-01544-x

[…] ria. Libraries were pooled and normalized for sequencing on the Illumina MiSeq Sequencer (San Diego, CA) using the 2 × 300 bp MiSeq Reagent Kit v3. The resulting amplicon sequences were analyzed with MetaAmp,. Operational taxonomic units (OTUs) were identified with a threshold of 97% sequence similarity. […]

call_split

Temporal dynamics in microbial soil communities at anthrax carcass sites

2017
BMC Microbiol
PMCID: 5615460
PMID: 28950879
DOI: 10.1186/s12866-017-1111-6
call_split See protocol

[…] rs see Additional file . The metaxa2 taxonomic profiles were visualised with a heatmap using ggplot2 in R-studio (see Additional file : for settings). Metaxa2 extracted SSU reads were run through the MetaAmp 1.1 pipeline to obtain operational taxonomical unit (OTU) abundances.Shotgun sequences from each dataset were compared to the NCBI nr database (accessed on 20.01.2016) using Diamond (v0.7.11) […]

call_split

Biocide mediated corrosion of coiled tubing

2017
PLoS One
PMCID: 5528904
PMID: 28746397
DOI: 10.1371/journal.pone.0181934
call_split See protocol

[…] Illumina Miseq system at the Energy Bioengineering Group, Department of Geosciences, University of Calgary. The 300PE reads were merged into single reads using PEAR 0.9.6 and further processed using MetaAmp, a 16S rRNA data analysis pipeline, developed by the Energy Bioengineering Group (http://ebg.ucalgary.ca/metaamp)[]. Raw 16S rRNA amplicon sequences are available from the Sequence Read Archiv […]

library_books

Robust, high productivity phototrophic carbon capture at high pH and alkalinity using natural microbial communities

2017
Biotechnol Biofuels
PMCID: 5372337
PMID: 28367229
DOI: 10.1186/s13068-017-0769-1

[…] The resulting amplicon sequences were analysed with MetaAmp (http://ebg.ucalgary.ca/metaamp), an in-house developed amplicon data analysis pipeline. In a first step, the paired-end raw reads from each sample went through the assembly (merging) process. […]


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MetaAmp institution(s)
Department of Geoscience, University of Calgary, Calgary, AB, Canada; Department of Biological Sciences, University of Calgary, Calgary, AB, Canada
MetaAmp funding source(s)
This research was funded by a Campus Alberta Innovation Chair, a NSERC Discovery grant, an Alberta Innovates Technology Futures iCORE grant, a NSERC Banting postdoctoral fellowship, the Government of Canada through Genome Canada, the Government of Alberta through Genome Alberta, Genome Prairie, Research Manitoba and Genome Quebec, and the Canada First Research Excellence Fund.

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