license: cc-by-4.0
language:
- en
tags:
- biology
- plant science
- named entity recognition
- relation extraction
pretty_name: PICKLE
PICKLE
PICKLE is the dataset associated with the manuscript In a PICKLE: A gold standard entity and relation corpus for the molecular plant sciences. The code repository associated with this dataset can be found here.
Format specification
This dataset is formatted according to the specifications for use with the DyGIE++ architecture.
NOTE: At this time, the dataset will throw a JSONDecodeError when used with load_datasets (see #6460 on datasets). In the meantime, you can access the data by downloading the .jsonl files directly from the GUI, and importing to Python with the following code:
import jsonlines
with jsonlines.open('train.jsonl') as reader:
train = []
for obj in reader:
train.append(obj)
Dataset details
There are a total of 250 documents in all.jsonl, split up into 68%/12%/20% train/dev/test. Each document is an abstract from a scientific paper in the search results for the terms "gibberellic acid" and "jasmonic acid". There are 6,245 entity and 2,149 relation annotations across the 250 documents.