pr2database/metapr2-shiny: metapr2-shiny version 4.0.0

Released: 2026-07-01

Database content

• Data sets: 187
• Samples: 26 315
• ASVs clustered: 229 793
• ASVs clustered: 275 680

New entries

• 120 new datasets
• 18 549 new samples

Access to metaPR2

• Web interface: https://app.metapr2.org
• Docker container
• R package
• Full dataset

Description of this release

It includes all EukBank datasets that contained more than 20 samples (Berney, C., Mahé, F., Henry, N., Lara, E., de Vargas, C., & consortium, E. (2023). EukBank 18S V4 dataset. Zenodo. https://doi.org/10.5281/zenodo.7804946).

ASVs are assigned with PR2 database version 5.1.

The full metapr2 dataset can be directly downloaded from the Zenodo record below. Two files are available

1 - metapr2_4.0_datasets_samples_asv.zip which contains 4 files

• datasets.xlsx - Information on the different datasets selected including reference and GenBank id
• samples.xlsx - List of samples selected with medadata
• asv.xlsx - ASV selected with taxonomy and sequence
• asv.fasta - ASV selected with taxonomy and sequence in fasta form

2 - metapr2_4.0_asv_abundance.tsv.gz - Percent of reads (normalized to total number of eukaryotic reads in the sample), for each ASV and each sample (long form). The file_code and asv_code columns link this table to the samples and asv tables (samples.xlsx and asv.xlsx)

More information here

A word of caution: Since this release contains a very large number of samples and metabarcodes (ASVs), we encourage you to select a small number of samples, typically less than 3000. Additionally rather than using the interactive web application we encourage you to download and install the application on your computer using docker.

The authors thank the ABiMS platform of the Station Biologique de Roscoff for providing computing and storage resources.

Please let us know of any problem you encounter with this release on GitHub.