ClaMS protocols

ClaMS specifications


Unique identifier OMICS_01452
Name ClaMS
Alternative name Classifier for Metagenomic Sequences
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Advanced
Stability Stable
Requirements JRE
Maintained Yes



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Publication for Classifier for Metagenomic Sequences

ClaMS IN pipeline

PMCID: 4768675
PMID: 26925311
DOI: 10.7717/peerj.1616

[…] 35,967 and 47,760 transcripts that were identified by blastn alignments as o. faveolata and symbiodinium in origin. however, 3504 transcripts were identified as both coral and symbiodinium by clams analyses. those sequences were removed thus producing an o. faveolata-specific transcriptome that contains 32,463 sequences. blastx alignment of these sequences to non-redundant protein […]

ClaMS institution(s)
Genome Biology Program, DOE Joint Genome Institute, Walnut Creek, CA, USA; Department of Computer Science, Virginia Tech, Blacksburg, VA, USA
ClaMS funding source(s)
Supported by the US Department of Energy Office of Science, Biological and Environmental Research Program and by the University of California, Lawrence Berkeley National Laboratory under contract DE-AC02-05CH11231, Lawrence Livermore National Laboratory under contract DE-AC52-07NA27344 and Los Alamos National Laboratory under contract DE-AC02-06NA25396.

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