AMPHORA specifications

Unique identifier:
OMICS_01450
Alternative names:
AMPHORA2, Phyla-AMPHORA, AmphoraNet
Restrictions to use:
None
Input format:
FASTA, FASTQ
Programming languages:
Perl, PHP, Python
Stability:
Stable
Name:
AutoMated PHylogenomic infeRence Application
Interface:
Web user interface
Input data:
A metagenomic or genomic sequence file.
Output data:
An input file, a marker genes file and a results file.
Computer skills:
Basic
Maintained:
Yes

AMPHORA specifications

Unique identifier:
OMICS_01450
Alternative names:
AMPHORA2, Phyla-AMPHORA, AmphoraNet
Interface:
Command line interface
Input data:
DNA sequences
Output data:
Aligned markers
Operating system:
Unix/Linux, Mac OS
License:
GNU General Public License version 2.0
Version:
2.0
Requirements:
HMMER3, RAxML, Bioperl, EMBOSS
Name:
AutoMated PHylogenomic infeRence Application
Software type:
Package/Module, Pipeline/Workflow
Restrictions to use:
None
Input format:
FASTA
Output format:
PHYLIP, FASTAn STOCKHOLM, SELEX or CLUSTAL
Programming languages:
Perl
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

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AMPHORA distribution

download

AMPHORA support

Documentation

Maintainers

  • Martin Wu <>
  • Csaba Kerepesi <>
  • Daniel Banky <>
  • Vince Grolmusz <>
  • Martin Wu <>
  • Csaba Kerepesi <>
  • Daniel Banky <>
  • Vince Grolmusz <>

Additional information

Phyla-AMPHORA: https://github.com/martinwu/Phyla_AMPHORA

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Publications

Institution(s)

Department of Biology, University of Virginia, Charlottesville, VA, USA

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