Quickly search, compare, and analyze genomic and metagenomic data sets.

MinHash, LSH, LSH Forest, Weighted MinHash, HyperLogLog, HyperLogLog++, LSH Ensemble and HNSW

Declarative creation of composable visualization for Python (Complex heatmap, Upset plot, Oncoprint and more~)

PyTorch Lightning + Hydra. A very user-friendly template for ML experimentation. ⚡🔥⚡

Hydra is a framework for elegantly configuring complex applications

Pretrain, finetune ANY AI model of ANY size on 1 or 10,000+ GPUs with zero code changes.

Organize your experiments into discrete steps that can be cached and reused throughout the lifetime of your research project.

A very simple framework for state-of-the-art Natural Language Processing (NLP)

UCE is a zero-shot foundation model for single-cell gene expression data

Direct estimation of mean and covariance from single cell RNA seq experiments

Code for "Graph Neural Networks can Recover the Hidden Features Solely from the Graph Structure" (ICML 2023)

A logical, reasonably standardized, but flexible project structure for doing and sharing data science work.

Fast, efficient RNA-Seq metrics for quality control and process optimization

A pytorch adversarial library for attack and defense methods on images and graphs

Democratizing Deep-Learning for Drug Discovery, Quantum Chemistry, Materials Science and Biology

A Python 3 package for learning Bayesian Networks (DAGs) from data. Official implementation of the paper "DAGMA: Learning DAGs via M-matrices and a Log-Determinant Acyclicity Characterization"

Genie: Fast and Robust Hierarchical Clustering with Noise Point Detection - in Python and R

A collection of awesome bio-foundation models, including protein, RNA, DNA, gene, single-cell, and so on.

PyTorch code for Vision Transformers training with the Self-Supervised learning method DINO

gnn explainer

Framework for Information Theoretical analysis of Electrophysiological data and Statistics

An open-source application for biological image analysis

MAGIC - imputation and de-noising single-cell RNA seq data sets

[Under development]- Implementation of various methods for dimensionality reduction and spectral clustering implemented with Pytorch

Clustering by fast search and find of density peaks

this is my repository for the quick draw prediction model project

RNAelem is a tool for learning secondary structural motifs from a set of RNA sequences.

Interactive Widgets for the Jupyter Notebook