MetaDomain specifications


Unique identifier OMICS_14527
Name MetaDomain
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data Sequence reads, list of protein domains
Output data A list of domains encoded in the underlying data set and the number of aligned reads
Operating system Unix/Linux, Mac OS
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Yuan Zhang

Publication for MetaDomain

MetaDomain citations


Methylation of histone H4 lysine 20 by PR Set7 ensures the integrity of late replicating sequence domains in Drosophila

Nucleic Acids Res
PMCID: 5009726
PMID: 27131378
DOI: 10.1093/nar/gkw333

[…] domain bin, were also included. The γ-H2A.v log2 differences and replication timing values within each bin were then calculated and the respective means across all domains were plotted to generate a metadomain. […]


Classification of Metagenomics Data at Lower Taxonomic Level Using a Robust Supervised Classifier

Evol Bioinform Online
PMCID: 4309676
PMID: 25673967
DOI: 10.4137/EBO.S20523

[…] taxonomic classification fall into two main categories: similarity-based methods and composition- based methods. Similarity-based methods, such as BLAST,2 CARMA,3 MEGAN,4 TreePhyler,5 MLTreeMap,6 and MetaDomain,7 can be used to identify evolutionary relationships of DNA fragments in comparison to a database of reference sequences. But similarity-based methods usually can only be used to classify t […]

MetaDomain institution(s)
Department of Computer Science and Engineering, Michigan State University, East Lansing, MI, USA

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