EukCC

EukCC estimates completeness and contamination of eukaryotic genomes assembled from metagenomic datasets using dynamically selected single-copy marker gene sets.

Key Features:

• Automated dynamic selection of single-copy marker gene sets: Automatically selects single-copy marker gene sets tailored to each dataset to inform quality metrics.
• Completeness estimation: Provides quantitative estimates of genome completeness for metagenome-assembled eukaryotic genomes.
• Enhanced contamination estimation: Produces contamination estimates and is noted for superior performance in estimating contamination levels compared to existing genome quality estimators, enabling distinction between genuine genomic sequences and contaminants.

Scientific Applications:

• Genome quality assessment in metagenomic assemblies: Assess completeness and contamination of eukaryotic genomes reconstructed from diverse environmental metagenomic datasets.
• Discovery of novel eukaryotic genomes: Facilitate identification of novel eukaryotic genomes, including a significant discovery in human skin microbiomes.

Methodology:

Leverages single-copy marker genes with automated dynamic selection of marker gene sets to estimate completeness and contamination of metagenome-assembled eukaryotic genomes.