metadata
pretty_name: TEA – Pathogen Identifier & Strain Tagger
tags:
- biomedical
- microbiology
- pathogens
- strains
- full-text
- named-entity-recognition
task_categories:
- token-classification
language:
- en
license:
- mit
- cc-by-4.0
- cc-by-sa-4.0
- cc-by-nc-4.0
- cc-by-nc-sa-4.0
size_categories:
- 1K<n<10K
dataset_info:
- config_name: pathogens
features:
- name: hash
dtype: string
- name: tokens
sequence: string
- name: ner_tags
sequence:
class_label:
names:
'0': O
'1': B-COMM
'2': I-COMM
'3': B-PROB
'4': I-PROB
'5': B-OPPO
'6': I-OPPO
'7': B-NEGA
'8': I-NEGA
'9': B-STRA
'10': I-STRA
'11': B-PATH
'12': I-PATH
- name: locations
dtype: string
- name: license
dtype: string
- name: license_version
dtype: string
- name: license_url
dtype: string
- name: attribution_text
dtype: string
splits:
- name: train
num_bytes: 50995544
num_examples: 505
download_size: 11318610
dataset_size: 50995544
- config_name: strains
features:
- name: hash
dtype: string
- name: tokens
sequence: string
- name: ner_tags
sequence:
class_label:
names:
'0': O
'1': B-STRA
'2': I-STRA
'3': B-SPEC
'4': I-SPEC
'5': B-NEGA
'6': I-NEGA
- name: locations
dtype: string
- name: license
dtype: string
- name: license_version
dtype: string
- name: license_url
dtype: string
- name: attribution_text
dtype: string
splits:
- name: train
num_bytes: 41153821
num_examples: 400
download_size: 8836267
dataset_size: 41153821
configs:
- config_name: pathogens
description: Curated human microbial pathogen entities
data_files:
- split: train
path: pathogens/train-*
default: true
- config_name: strains
description: Curated microbial strain and species entities
data_files:
- split: train
path: strains/train-*
Dataset Summary
TEA – Pathogen Identifier & Strain Tagger is a curated biomedical corpus with
505 full-text articles curated for human microbial pathogens and 400 articles on microbial strains.
Over 3,500 entity spans are annotated in IOB2 format.
Usage
from datasets import load_dataset
pathogens_ds = load_dataset("tznurmin/tea_curated", "pathogens", split="train")
strains_ds = load_dataset("tznurmin/tea_curated", "strains", split="train")
print(pathogens_ds[152])
print(len(strains_ds))