---
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](https://github.com/serenalotreck/pickle-corpus-code).

## Format specification
This dataset is formatted according to the [specifications for use with the DyGIE++ architecture](https://github.com/dwadden/dygiepp/blob/master/doc/data.md).
**NOTE:** At this time, the dataset will throw a `JSONDecodeError` when used with `load_datasets` (see [#6460 on `datasets`](https://github.com/huggingface/datasets/issues/6460)). 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.