Hi @alemkow (Cc @MYSchmidt ),
We’ve uploaded the PDMB metagenomic sequencing QC data to FoxDEN. You can find the files under Fox DEN > Resources > PD Microbiome QC and Read Mapping Metrics:
qc_metrics_consented.csv— per-sample sequencing quality control metrics (read depths at each processing stage, Q-scores, GC content, deduplication rates)sample_overview_consented.csv— per-sample read counts at the genus, species, and strain levels, and mapping to KEGG Orthology groups
A full data dictionary describing all column names, definitions, and units is available at Fox Insight Parkinson's Disease Microbiome Study Sequencing Reports: Quality Control and Mapping Metrics .
We hope that this additional information will be helpful in determining exclusions. Please let me know if you have any feedback at all.
Best,
Matt