metaprob

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assembly-assisted tool for un-supervised metagenomic binning

Home https://bitbucket.org/samu661/metaprob/
Versions 2
License copyright
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/metaprob

MetaProb is a novel assembly-assisted tool for un-supervised metagenomic binning. The novelty of MetaProb derives from solving a few important problems: how to divide reads into groups of independent reads, so that l-mer frequencies are not overestimated; how to convert l-mer counts into probabilistic sequence signatures, that will correct for variable distribution of l-mers, and for unbalanced groups of reads, in order to produce better estimates of the underlying genome statistic. We show that MetaProb is effective for both simulated and real datasets. It can accurately (with F-measures of 87 for short reads and 97 long reads) and efficiently bin short and long reads with varying abundance ratios.

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install metaprob

and update with:

conda update metaprob

docker

A Docker container is available at https://quay.io/repository/biocontainers/metaprob.