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ClaMS | A Classifier for Metagenomic Sequences

Allows to bin assembled contigs in metagenomes. ClaMS is a sequence composition-based classifier targeted for use on assembled contigs with supervision from the user and in this scenario. Precomputed signatures at various word lengths (2-4) are included with ClaMS for all finished genomes. The software can run in a command-line mode, which makes it convenient to be included in processing pipelines and large-scale batch-processing jobs.

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ClaMS forum

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ClaMS classification

ClaMS specifications

Unique identifier:
Software type:
Restrictions to use:
Programming languages:
Classifier for Metagenomic Sequences
Command line interface, Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:

ClaMS distribution


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ClaMS support


  • ClaMS Team <>


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Genome Biology Program, DOE Joint Genome Institute, Walnut Creek, CA, USA; Department of Computer Science, Virginia Tech, Blacksburg, VA, USA

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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