Metagenomic assembly of shotgun reads generates huge number of scaffolds derived from different microbial genomes present in the community. Binning is the process of grouping scaffolds (or sequence reads) and assign them to the operational taxonomic units. The microbial genomes extracted from the binning procedure are frequently named “genome bins” to discriminate them from microbial genomes obtained from sequencing and assembly of a bacterial clone.
In this project we report a collection of perl scripts specifically designed for the binning procedure. Some of them were developed to perform in an automatic way the procedure proposed by Albertsen and coll. (http://www.ncbi.nlm.nih.gov/pubmed/?term=23707974), others are specifically developed for a newly developed binning strategy aimed to simplify the binning of hundreds of genomes and to estimate their completeness.
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