ClaMS: A Classifier for Metagenomic Sequences

ClaMS – “Classifier for Metagenomic Sequences” – is a Java application for binning assembled contigs in metagenomes using user-specified training sets and initial parameters. Since ClaMS trains on sequence composition-based genomic signatures, it is much faster than binning tools that rely on alignm...

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Detalles Bibliográficos
Autores principales: Pati, Amrita, Heath, Lenwood S., Kyrpides, Nikos C., Ivanova, Natalia
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Michigan State University 2011
Materias:
Research Articles
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3235515/
https://www.ncbi.nlm.nih.gov/pubmed/22180827
http://dx.doi.org/10.4056/sigs.2075298
Descripción
Sumario:ClaMS – “Classifier for Metagenomic Sequences” – is a Java application for binning assembled contigs in metagenomes using user-specified training sets and initial parameters. Since ClaMS trains on sequence composition-based genomic signatures, it is much faster than binning tools that rely on alignments to homologs; ClaMS can bin ~20,000 sequences in 3 minutes on a laptop with a 2.4 GH× Intel Core 2 Duo processor and 2 GB RAM. ClaMS is meant to be a desktop application for biologists and can be run on any machine under any Operating System on which the Java Runtime Environment can be installed.

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