Literature Mining Python Packages

sci-etl-core

Async-first, domain-agnostic Python toolkit for mining scientific literature: LLM-powered ETL pipelines with pluggable extractors, parsers, exporters, and resumable state.

lixplore-cli

A Unix-inspired command-line tool for searching scientific literature, built for terminal users who want speed, automation and minimal interfaces. Search PubMed, arXiv, Crossref, DOAJ and Europe PMC in one command, deduplicate results, export to BibTeX/RIS/CSV and more, and get new-paper alerts on email, Telegram, Slack and 14 other channels.

sci-etl-cli

CLI tool for sci-etl-core to search arXiv, parse PDFs, validate configurations, and run asynchronous ETL extraction pipelines.

iambic

Text processing, data extraction, and rendering library for Shakespearean text.

okf-loremaster

Multi-agentic biomedical literature evidence extraction, curation, and summarization from PubMed/PMC in Open Knowledge Format (OKF) for downstream machine learning, feature selection, and agentic applications.

easy-entrez

Retrieve PubMed articles, text-mining annotations, or molecular data from >35 Entrez databases via easy to use Python package - built on top of Entrez E-utilities API.

lisc

Literature Scanner: Automated collection & analyses of the scientific literature.

scribl

Semantic Capture of Relationships In Biological Literature (scribl)

pubmatrixpython

PubMatrixP is an Python version of R package PubMatrixR that performs systematic literature searches on PubMed and PMC databases using pairwise combinations of search terms. It creates co-occurrence matrices showing the number of publications that mention both terms from two different sets, enabling to explore relationships between term

nat

Python module to use the annotations created with NeuroCurator, for example in a Jupyter notebook.

paperminertoolkit

Builds scientific-paper corpora and extracts structured, recipe-defined data with configurable text and vision models.

neozot

get recommendations from arxiv based on your zotero library