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MARTA | A suite of Java-based tools for assigning taxonomic status to DNA sequences

A suite of Java-based software to better provide taxonomic assignments to DNA sequences. MARTA is useful for protistologists, virologists, mycologists and other microbial ecologists. The program relies on NCBI utilities including the BLAST software and Taxonomy database and is easily manipulated at the command-line to specify a BLAST candidate's query-coverage or percent identity requirements; other options include the ability to set minimal consensus requirements (%) for each of the eight major taxonomic ranks (Domain, Kingdom, Phylum, ...) and whether to consider lower scoring candidates when the top-hit lacks taxonomic classification.

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MARTA forum

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MARTA classification

MARTA specifications

Unique identifier:
OMICS_01454
Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Java
Stability:
Stable
Name:
Metagenomic AND rDNA Taxonomic Assignment
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes

MARTA distribution

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Publications

Institution(s)

Department of Ecology and Evolution, Chicago, IL, USA

Funding source(s)

National Science Foundation Predoctoral Fellowship; ARCS Foundation Scholarship; Computation Institute Fellowship at the University of Chicago; NSF (MCB 0603515); Swiss National Science Foundation Postdoctoral Fellowship

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