quality_check
genome abundance similarity correction
Install
- All systems
-
curl cmd.cat/quality_check.sh
- Debian
-
apt-get install gasic
- Ubuntu
-
apt-get install gasic
- Kali Linux
-
apt-get install gasic
- Windows (WSL2)
-
sudo apt-get update
sudo apt-get install gasic
- Dockerfile
- dockerfile.run/quality_check
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.