metashot prok-quality

metashot prok-quality assesses the quality of prokaryotic genomes reconstructed from metagenomic contigs and bins by producing MIMAG-compliant genome quality reports.

Key Features:

• Genome quality assessment: Evaluates the quality of genomes reconstructed from metagenomic contigs and bins originating from bacterial and archaeal species.
• MIMAG compliance: Generates genome quality reports that adhere to the Minimum Information about a Metagenome-Assembled Genome (MIMAG) standard.
• Nextflow workflow: Implemented as a Nextflow pipeline to organize and execute analytical steps.
• Container support: Executes within Docker or Singularity containers to ensure reproducibility and portability across computing clusters and cloud infrastructures.
• Automated end-to-end processing: Provides an automated workflow for systematic quality assessment of prokaryotic draft genomes.
• Integration with metashot collection: Operates as part of the metashot suite of analysis pipelines for metagenomic processing.

Scientific Applications:

• Metagenomic genome quality evaluation: Assessment of draft prokaryotic genomes derived from metagenomic sequencing and binning of complex microbial communities.
• Standardized reporting: Production of MIMAG-compliant quality reports to support standardized reporting of genome quality in research outputs.
• Reproducible analyses: Enabling consistent quality assessment across computing clusters and cloud-based batch infrastructures.

Methodology:

Implemented as a Nextflow workflow executed within Docker or Singularity containers that takes metagenomic contigs and bins as input and outputs MIMAG-compliant genome quality reports.