Tag: AMPHORA2

AMPHORA2 – Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences

AMPHORA2

:: DESCRIPTION

AMPHORA is an automated phylogenomic inference application for large-scale protein phylogenetic analysis. It has been applied to automated genome tree construction and metagenomic sequence phylotyping.

::DEVELOPER

Wu Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 AMPHORA2

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Apr 1;28(7):1033-4. doi: 10.1093/bioinformatics/bts079. Epub 2012 Feb 12.
Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2.
Wu M1, Scott AJ.

AmphoraVizu – Chart Visualization for Metagenomic and Genomic Analysis tools AMPHORA2 and AmphoraNet

AmphoraVizu

:: DESCRIPTION

AmphoraVizu can visualize outputs generated by the metagenomic and genomic analysis tool AMPHORA2 or its webserver implementation AmphoraNet.

::DEVELOPER

PIT Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/ Linux/ MacOsX
  • Perl

:: DOWNLOAD

  AmphoraVizu

:: MORE INFORMATION

Citation

Microb Ecol. 2015 Apr;69(3):695-7. doi: 10.1007/s00248-014-0502-6. Epub 2014 Oct 10.
Visual Analysis of the Quantitative Composition of Metagenomic Communities: the AmphoraVizu Webserver.
Kerepesi C1, Szalkai B, Grolmusz V.

AmphoraNet – Metagenomic and Genomic Analysis tool (AMPHORA2)

AmphoraNet

:: DESCRIPTION

AmphoraNet webserver implementation of the AMPHORA2 workflow for phylogenetic analysis of metagenomic shotgun sequencing data and genomic data

::DEVELOPER

PIT Bioinformatics Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

AmphoraNet: the webserver implementation of the AMPHORA2 metagenomic workflow suite.
Kerepesi C, Bánky D, Grolmusz V.
Gene. 2014 Jan 10;533(2):538-40. doi: 10.1016/j.gene.2013.10.015