Opal protocols

Opal specifications


Unique identifier OMICS_03738
Name Opal
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Protein and DNA sequences
Input format FASTA
Output data Protein and DNA alignments
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 2.1.3
Stability Stable
Maintained Yes



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Publication for Opal

Opal IN pipeline

PMCID: 4673690
PMID: 26648001
DOI: 10.1038/srep17952

[…] on the four-way consistency objective function to build a multiple alignment by combining scarna algorithm for the initial pairwise alignments58. sequences were aligned using default settings in opal59 as implemented in in mesquite 3.0160. separate analyses for each sequence was done using bayesian approach in mrbayes v3.1.261 using a general time reversible (gtr) substitution model (coi […]

Opal institution(s)
Department of Computer Science, The University of Arizona, Tucson, AZ, USA
Opal funding source(s)
This project was supported by a PhD Fellowship from the University of Arizona National Science Foundation IGERT Genomics Initiative grant DGE-0114420 and the US National Science Foundation through grant DBI-0317498.

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