Repository Index

Complex code hides connections, workflows, and business risks.Unvibe complex code. Trace business workflows.

• business-logic
• code-analysis
• code-understanding
• codebase-analysis

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

• drug-repurposing
• deep-learning
• drug-target-interactions
• toolkit

WeVisOne-VL is a powerful VLM by the WeChat Vision Team at Tencent, unifying object-level and pixel-level perception from points and boxes to masks and alpha mattes.

Code for "High-Precision Model-Agnostic Explanations" paper

Pathology Foundation Model - Nature Medicine

• foundation
• foundation-model
• histopathology
• mahmoodlab

Data Hacking Project

🍇 GRAPE is a Rust/Python Graph Representation Learning library for Predictions and Evaluations

• graph
• high-performance
• machine-learning
• knowledge-graph

IPython notebooks on Gilbert Strang's MIT course on linear algebra (18.06)

Mostly experiments based on "Advances in financial machine learning" book

Cleora AI is a general-purpose open-source model for efficient, scalable learning of stable and inductive entity embeddings for heterogeneous relational data. Created by Synerise.com team.

• ai
• graphs
• synerise
• embeddings

optimization routines for hyperparameter tuning

Every day, millions of traders around the world are trying to make money by trading stocks. These days, physical traders are also being replaced by automated trading robots. Algorithmic trading market has experienced significant growth rate and large number of firms are using it. I have tried to build a Deep Q-learning reinforcement agent model to do automated stock trading.

scikit-learn wrappers for Python fastText.

Usiigaci: stain-free cell tracking in phase contrast microscopy enabled by supervised machine learning

• tensorflow
• python3
• keras
• resnet-101

Wrapper for RDKit's RunReactants to improve stereochemistry handling

scPerturb: A resource and a python/R tool for single-cell perturbation data

• cite-seq
• database
• perturbation
• scatac-seq

openvino version of openai/whisper

• whisper
• asr
• openvino

A python Two Source Energy Balance model for estimation of evapotranspiration with remote sensing data

• source-energy-balance
• canopy
• soil
• radiometric-temperatures

Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.

• disentanglement
• drug-discovery
• genomics
• perturbation

PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturbations at bulk and single-cell levels.

Peax is a tool for interactive visual pattern search and exploration in epigenomic data based on unsupervised representation learning with autoencoders

• epigenomics
• pattern-search
• data-visualization
• interactive-machine-learning

Research experiments exploring uncommon quant techniques.

• analysis
• jupyter-notebook
• python
• quant

Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.

• foundation-models
• gpt
• single-cell

High-Dimensional Gene Expression and Morphology Profiles of Cells across 28,000 Genetic and Chemical Perturbations