correct_abundances

genome abundance similarity correction

Install

All systems
curl cmd.cat/correct_abundances.sh
Debian Debian
apt-get install gasic
Ubuntu
apt-get install gasic
image/svg+xml Kali Linux
apt-get install gasic
Windows (WSL2)
sudo apt-get update sudo apt-get install gasic
Dockerfile
dockerfile.run/correct_abundances

gasic

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.