metawatt

The Metawatt binner is a graphical binning tool that makes use of multivariate statistics of tetranucleotide frequencies and differential coverage based binning. It also performs taxonomic assessment of binning quality (via diamond BLASTx). Created bins can be edited and exported as fasta. The Metawatt is implemented in Java SWING and minimally depends on Diamond, HMMer3.1, BBMap, Prodigal and the Batik library for the export of SVG graphics.

Citation: Strous M, Kraft B, Bisdorf R, TegetMeyer H (2012) The binning of metagenomic contigs for microbial physiology of mixed cultures. Frontiers in Microbial Physiology and Metabolism 3:410. doi: 10.3389/fmicb.2012.00410

Features

Combined tetranucleotide and differential coverage binning of metagenomic contigs
Graphical user interface for data exploration
Taxonomic Profiling of Bins with Diamond blastp
Detection of Conserved Single Copy Genes
Phylogenetic Treeing of bins based on conserved genes
Interactive GC/coverage or coverage/coverage plots
Also runs fully automatically on the command line

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License

Academic Free License (AFL)

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Additional Project Details

Operating Systems

Linux

Languages

English

Intended Audience

Science/Research

User Interface

Java Swing

Programming Language

Java

Related Categories

Java Bio-Informatics Software

Registered

2012-10-15

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