Download README.txt (GASiC)

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GASiC Overview

Genome Abundance Similarity Correction

One goal of sequencing based metagenomic analysis is the quantitative taxonomic assessment of microbial community compositions. However, the majority of approaches either quantify at low resolution (e.g. at phylum level) or have severe problems discerning highly similar species. Yet, accurate quantification on species level is desirable in applications such as metagenomic diagnostics or community comparison. GASiC is a method to correct read alignment results for the ambiguities imposed by similarities of genomes. It has superior performance over existing methods.

You can find the accompanying paper here:
http://nar.oxfordjournals.org/content/41/1/e10.short

Thanks to the great work of the SeqAn team, you can now use GASiC as a Knime workflow:
https://github.com/seqan/knime_seqan_workflows/tree/master/metagenomics_gasic_workflow

Additional Details for GASiC

Operating Systems

Linux

User Interface

Console/Terminal

Programming Language

Python

Registered

2012-03-13

Last Updated

2016-01-23

Maintainers

lindnerm

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GASiC

Genome Abundance Similarity Correction

Additional Details for GASiC

Operating Systems

User Interface

Programming Language

Registered

Last Updated

Categories

Maintainers

Keep Me Updated!