Datasets › LINNAEUS
LINNAEUS
LINNAEUS is a general-purpose dictionary matching software, capable of processing multiple types of document formats in the biomedical domain (MEDLINE, PMC, BMC, OTMI, text, etc.). It can produce multiple types of output (XML, HTML, tab-separated-value file, or save to a database). It also contains methods for acting as a server (including load balancing across several servers), allowing clients to request matching over a network. A package with files for recognizing and identifying species names is available for LINNAEUS, showing 94% recall and 97% precision compared to LINNAEUS-species-corpus.
Source: LINNAEUS
Benchmarks archive 2025-07-28
All 1 leaderboard whose dataset resolves to this page shown (sort by any header). "First row" is the archive's own first row at snapshot, in the archive's row order; nothing here re-ranks and metric direction is not asserted.
| First row (archive order) | Paper | Code | ||||
|---|---|---|---|---|---|---|
| Named Entity Recognition (NER) | LINNAEUS | BLSTM-CNN-Char (SparkNLP) F1 86.26 | Biomedical Named Entity Recognition at Scale | JohnSnowLabs/spark-nlp-workshop | 6 | Compare |
Papers archive 2025-07-28
4 shown of 4 papers with a leaderboard row on this dataset's benchmarks, newest first. The archive's own "papers using this dataset" list was never published, so this is the benchmark-backed subset; the archive's count for this dataset is 5. The Syntology column is from Syntology's graph (read 2026-09-25), stated per sample; it is not part of any archive number.
| Date | Samples run Syntology | |||
|---|---|---|---|---|
| BERN2: an advanced neural biomedical named entity recognition and normalization tool | 1 | 1 | 6 Jan 2022 | ran 2 of 2 samples (0 unverified) |
| Biomedical Named Entity Recognition at Scale | 1 | 2 | 12 Nov 2020 | not harvested |
| BioFLAIR: Pretrained Pooled Contextualized Embeddings for Biomedical Sequence Labeling Tasks | 1 | 1 | 13 Aug 2019 | not harvested |
| A Neural Named Entity Recognition and Multi-Type Normalization Tool for Biomedical Text Mining | 1 | 1 | 4 Jun 2019 | not harvested |
Dataset loaders archive 2025-07-28
2 loaders as listed in the archive; links are outbound and not re-checked here.
Tasks archive 2025-07-28
License archive 2025-07-28
No licence recorded in the archive. Absence here is not a statement about the dataset's terms.
Modalities archive 2025-07-28
Languages archive 2025-07-28
No language tagged.
Variants archive 2025-07-28
- LINNAEUS
1 variant name, as the archive lists them.
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