2026-10-09T19:52:52Z https://api.figshare.com/v2/oai

oai:figshare.com:article/33990655 2026-09-24T19:55:33Z category_24184 category_24484 category_24310 item_type_3 month_year_09_2026

A PlaScope Centrifuge index for Enterococcus: chromosome/plasmid database, build recipe, and the measured cost of using the Escherichia coli index instead Vahhab Piranfar (24705250) Bioinformatic methods development Clinical microbiology Genomics PlaScope Centrifuge plasmid chromosome Enterococcus Enterococcus faecium Enterococcus faecalis contig classification reference database benchmarking <p>PlaScope classifies contigs as chromosomal or plasmid-derived with Centrifuge against a <strong>species-specific</strong> index, and ships one built for <em>Escherichia coli</em>. Applied to another genus it abstains rather than failing, so the misconfiguration is silent. This deposit supplies the index that was missing for <em>Enterococcus</em>, the material and commands it was built from, and a measurement of what the mismatch costs on 50 clinical enterococcal isolates: abstention 80.2% → 3.4%, precision 0.224 → 0.991, recall 0.067 → 0.960. It is a database, not a fork: no PlaScope code is modified or redistributed.</p> 2026-09-24T19:55:33Z Dataset Dataset 10.6084/m9.figshare.33990655.v1 https://figshare.com/articles/dataset/A_PlaScope_Centrifuge_index_for_Enterococcus_chromosome_plasmid_database_build_recipe_and_the_measured_cost_of_using_the_Escherichia_coli_index_instead/33990655 CC BY 4.0