Medical Abstract Segmentation NLP Tools

Tools for structurally parsing and classifying sections of medical research abstracts (Background, Methods, Results, etc.). Does NOT include general document parsing, biomedical relationship extraction, or PubMed data collection infrastructure.

There are 31 medical abstract segmentation tools tracked. 1 score above 50 (established tier). The highest-rated is titipata/pubmed_parser at 64/100 with 727 stars and 9,126 monthly downloads.

Get all 31 projects as JSON

curl "https://pt-edge.onrender.com/api/v1/datasets/quality?domain=nlp&subcategory=medical-abstract-segmentation&limit=20"

Open to everyone — 100 requests/day, no key needed. Get a free key for 1,000/day.

#	Tool	Score	Tier	Stars	Language
1	titipata/pubmed_parser :clipboard: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset	64	Established	727	Python
2	nfflow/pubmedflow Data Collection API for pubmed	42	Emerging	41	Python
3	greenelab/snorkeling Extracting biomedical relationships from literature with Snorkel 🏊	36	Emerging	58	Jupyter Notebook
4	purplepotion/sadrat Smart Adverse Drug Reaction Assessment Tools.	32	Emerging	19	Jupyter Notebook
5	KarelDO/BioDEX BioDEX: Large-Scale Biomedical Adverse Drug Event Extraction for Real-World...	29	Experimental	60	Jupyter Notebook
6	databricks-industry-solutions/adverse-drug-events To ensure ongoing drug safety, pharma companies need to monitor and report...	29	Experimental	7	Python
7	nasa-petal/PeTaL-labeller The PeTaL labeler labels journal articles with biomimicry functions.	28	Experimental	6	Jupyter Notebook
8	andreped/adverse-events IEEE BIBM 2021: Bayesian optimization-guided topic modeling for automatic...	27	Experimental	7	Python
9	jind11/PubMed-PICO-Detection PubMed PICO Element Detection Dataset	27	Experimental	57	—
10	techthumb1/Drug-Safety-Monitoring-Application A real-time application that scrapes public health databases, employs NLP...	25	Experimental	3	Python
11	greenelab/snorkeling-full-text This is an upgraded version of the original snorkeling project.	24	Experimental	4	Jupyter Notebook
12	pszemraj/pubmed-text-classification ETHZ Machine Learning for Healthcare Problem 2: classification of pubmed...	22	Experimental	1	Jupyter Notebook
13	Ferrariic/pubwords All non-duplicated words as scraped from every publicly available PubMed abstract.	20	Experimental	2	Python
14	OdedMous/Medical-Text-Classification Developed an NLP classifier for detecting medical domains in texts using a...	20	Experimental	9	Jupyter Notebook
15	sergiog95/csabstracts Dataset of scientific abstracts for the purpose of sentence classification	19	Experimental	10	—
16	AswaniSahoo/biodiversity-publication-analyzer NLP-powered tool to discover and classify biodiversity genomics publications...	19	Experimental	—	Python
17	cognitive-metascience/psychological_abstract_crawler Retrieves scientific article abstracts, applies tagging to categorize them,...	18	Experimental	3	Python
18	ncbi/biocreative_litcovid Evaluation scripts of the Biocreative LitCovid track	16	Experimental	4	Python
19	knowlab/ACE-NLP Identify Adverse Childhood Experiences from free-text data using NLP	15	Experimental	2	—
20	JatinPhogat/Durg-Safety-Monitoring-Tool AI-powered tool for detecting and analyzing Adverse Drug Reactions (ADRs)...	15	Experimental	—	Python
21	qanastek/BioCreative-VII-Track-5 [BioCreative VII] Track 5 - LitCovid track Multi-label topic classification...	14	Experimental	1	Python
22	johndef64/grpm_bertopic paper: https://link.springer.com/chapter/10.1007/978-3-031-78093-6_1	14	Experimental	3	Jupyter Notebook
23	MTG-Lab/gpad Genotype-Phenotype Association Discovery: An ML tool to search and visualize...	13	Experimental	5	Python
24	p-karisani/illness-dataset A dataset for evaluating text classification, domain adaptation, and active...	12	Experimental	4	—
25	harshd23/Paper_Peek Paper Peek is a project based on Natural Language Processing which helps the...	11	Experimental	2	Jupyter Notebook
26	MatthewJansen/Medical-Abstract-Segmentation A Natural Language Processing (NLP) model with TensorFlow to segment text...	11	Experimental	2	Jupyter Notebook
27	Zulqarnain-cc34/MoleVision 🔍🩺 Detecting Skin Cancer: Classical Models, Deep Learning, and Finetuning...	11	Experimental	2	Jupyter Notebook
28	MPKuchciak/PubMedResearch This repository focuses on processing and analyzing PubMed abstracts to...	11	Experimental	—	Jupyter Notebook
29	arifbinazhar/Network-Validation This Repository deals with our project on literature based validation of...	11	Experimental	—	Python
30	Shr3yash/eSKIMo eSKIMo is a text skimmer and labelling tool built using TensorFlow in...	11	Experimental	2	Jupyter Notebook
31	smellycloud/pubmed_literature_scan Sequential Sentence Classification in Medical Abstracts with TensorFlow	10	Experimental	1	Jupyter Notebook