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nlp-datasets

Alphabetical list of free/public domain datasets with text data for use in Natural Language Processing (NLP)

npde

Nonparametric Differential Equation Modeling

numpy-ml

Machine learning, in numpy

onclass

Single cell typing based on cell ontology

openbiolink

OpenBioLink is a resource and evaluation framework for evaluating link prediction models on heterogeneous biomedical graph data.

openfold

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

owl-rl

A simple implementation of the OWL2 RL Profile on top of RDFLib: it expands the graph with all possible triples that OWL RL defines. It can be used together with RDFLib to expand an RDFLib Graph object, or as a stand alone service with its own serialization.

pandas-exercises

Walkthrough exercises from PandasTutorial by Wes McKinney.

paragraph

Antibody paratope prediction using Graph Neural Networks with minimal feature vectors

pdfact

A basic tool that extracts the structure from the PDF files of scientific articles.

phate

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.

pointvs

SE(3)-equivariant point cloud networks for virtual screening

probability

Probabilistic reasoning and statistical analysis in TensorFlow

prolif

Protein-Ligand Interaction Fingerprints

protein_bert

pseudotime-network-inference

Python code for performing boolean network inference

psn

Perl-Speaks-NONMEM

pubmedqa

PubMedQA: A Dataset for Biomedical Research Question Answering

pumas.jl

Pharmaceutical Modeling and Simulation for Nonlinear Mixed Effects (NLME), Quantiative Systems Pharmacology (QsP), Physiologically-Based Pharmacokinetics (PBPK) models mixed with machine learning

pybiomed

machine learning, molecular descriptor

pykeen

🤖 A Python library for learning and evaluating knowledge graph embeddings

pykg2vec

Python library for knowledge graph embedding and representation learning.

pyscenic

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

python-deep-learning

python deep learning notebooks

python-getting-started

Getting Started with Python on Heroku

rankcorr

A marker selection method for scRNA-seq data based on rank correlation

rascore

A tool for analyzing RAS protein structures

refinegnn

reinforcement-learning

Implementation of Reinforcement Learning Algorithms. Python, OpenAI Gym, Tensorflow. Exercises and Solutions to accompany Sutton's Book and David Silver's course.

reinforcement-learning-an-introduction

Python implementation of Reinforcement Learning: An Introduction