PyRuSH

PyRuSH

PyRuSH is the python implementation of RuSH <https://github.com/jianlins/RuSH>_ (Ru le-based sentence S egmenter using H ashing), which is originally developed using Java. RuSH is an efficient, reliable, and easy adaptable rule-based sentence segmentation solution. It is specifically designed to handle the telegraphic written text in clinical note. It leverages a nested hash table to execute simultaneous rule processing, which reduces the impact of the rule-base growth on execution time and eliminates the effect of rule order on accuracy.

If you wish to cite RuSH in a publication, please use:

Jianlin Shi ; Danielle Mowery ; Kristina M. Doing-Harris ; John F. Hurdle.RuSH: a Rule-based Segmentation Tool Using Hashing for Extremely Accurate Sentence Segmentation of Clinical Text. AMIA Annu Symp Proc. 2016: 1587.

The full text can be found here <https://knowledge.amia.org/amia-63300-1.3360278/t005-1.3362920/f005-1.3362921/2495498-1.3363244/2495498-1.3363247?timeStamp=1479743941616>_.

Installation

pip install PyRuSH

How to use

A standalone RuSH class is available to be directly used in your code. From 1.0.4, pyRush adopt spaCy 3.x api to initiate an component.

>>> from PyRuSH import RuSH
>>> input_str = "The patient was admitted on 03/26/08\n and was started on IV antibiotics elevation" +\
>>>              ", was also counseled to minimizing the cigarette smoking. The patient had edema\n\n" +\
>>>              "\n of his bilateral lower extremities. The hospital consult was also obtained to " +\
>>>              "address edema issue question was related to his liver hepatitis C. Hospital consult" +\
>>>              " was obtained. This included an ultrasound of his abdomen, which showed just mild " +\
>>>              "cirrhosis. "
>>> rush = RuSH('../conf/rush_rules.tsv')
>>> sentences=rush.segToSentenceSpans(input_str)
>>> for sentence in sentences:
>>>     print("Sentence({0}-{1}):\t>{2}<".format(sentence.begin, sentence.end, input_str[sentence.begin:sentence.end]))

Spacy Componentized PyRuSH

Start from version 1.0.3, PyRuSH adds Spacy compatible Sentencizer component: PyRuSHSentencizer.

>>> from PyRuSH import PyRuSHSentencizer
>>> from spacy.lang.en import English
>>> nlp = English()
>>> nlp.add_pipe("medspacy_pyrush")
>>> doc = nlp("This is a sentence. This is another sentence.")
>>> print('\n'.join([str(s) for s in doc.sents]))

A Colab Notebook Demo

Feel free to try this runnable Colab notebook Demo <https://colab.research.google.com/drive/1gX9MzZTQiPw8G3x_vUwZbiSXGtbI0uIX?usp=sharing>_