Stars
Software for calculating and graphing kinetic curves for proteins labeled with Deuterated water. Please use latest edition appropriate to your python version (2.1 for python 2, 3.1 for python 3)
This is a collection of minimal code to visualize various aspects of proteomics data.
STHN: Simplifying Temporal Heterogeneous Network for Continuous-Time Link Prediction [CIKM 2023]
Code used in the paper Stochastic Actor Oriented Model with Random Effects
Chat with your database or your datalake (SQL, CSV, parquet). PandasAI makes data analysis conversational using LLMs and RAG.
Topic modeling with BERTopic for PubMed abstracts on mental health in academia
AGATHA: Automatic Graph-mining And Transformer based Hypothesis generation Approach
Graph layout and visualization for million-node citation network
🤖 A Python library for learning and evaluating knowledge graph embeddings
Official repo for ACL 2023 paper Code4Struct: Code Generation for Few-Shot Structured Prediction from Natural Language.
Source code for "A Deep-learning System Bridging Molecule Structure and Biomedical Text with Comprehension Comparable to Human Professionals"
End-to-End Models for Chemical–Protein Interaction Extraction: Better Tokenization and Span-Based Pipeline Strategies
Tools for curating biomedical training data for large-scale language modeling
Data structures and code to read/write BioC XML and Json.
KnetMiner - webapp to search and visualize genome-scale knowledge graphs
Stanford NLP Python library for tokenization, sentence segmentation, NER, and parsing of many human languages
Stanford Open Information Extraction made simple!
ViewVC is a browser interface for CVS and Subversion version control repositories.
Python implementation of iterative-random-forests
Multi-task deep learning framework for multi-omics data analysis
Python library to handle Gene Ontology (GO) terms