Repository Index

Eclipse SUMO is an open source, highly portable, microscopic and continuous traffic simulation package designed to handle large networks. It allows for intermodal simulation including pedestrians and comes with a large set of tools for scenario creation.

• traffic
• simulation
• transport

USD BRep is a standalone C++ and Python library for NURBS-based boundary representation (BRep) solid modeling

A flexible framework for solving PDEs with modern spectral methods.

• spectral-methods
• fluid-dynamics
• pde-solver

:1234: Bits, bytes and general-purpose calculator

• storage
• storage-unit-converter
• command-line
• standalone

Reference mapping for single-cell genomics

• single-cell
• deep-learning
• rna-seq-analysis
• data-integration

Neural networks toolbox focused on medical image analysis

• python
• keras
• convolutional-neural-networks
• brain

Supernodal sparse direct solver. https://portal.nersc.gov/project/sparse/superlu/

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

• histology
• wsi-images
• pan-cancer-analysis
• genomics

PyTorch implementation of the MIDAS algorithm for single-cell multimodal data integration (Nature Biotechnology 2024).

• deep-generative-model
• deep-learning
• single-cell-data-integration
• single-cell-multiomics

Deep learning model for single-cell inference of multi-omic profiles from a single input modality.

• single-cell
• scrna-seq
• scatac-seq
• deep-neural-networks

A configurable constraint solver

A foundation model-driven whole slide image-scale cell phenotyping method with QuPath integration Resources

• bioimage-analysis
• cell-classification
• computer-vision
• digital-pathology

A versatile single-cell cross-modality translation method via dual-aligned variational autoencoders

Official implementation of JAMIE, Joint variational Autoencoders for Multimodal Imputation and Embedding

• autoencoder
• imputation
• integration
• multimodal

scPair: Boosting single cell multimodal analysis by leveraging single cell atlases and implicit feature selection

Metric stream related math functions.