liangzhendong123

ASAP

Program for the analysis and visualization of whole-slide images in digital pathology

casanovo

De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model

denovopipeline

Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.

depthcharge

A deep learning toolkit for mass spectrometry

DPST

A de novo peptide sequencing transformer

fairseq

Facebook AI Research Sequence-to-Sequence Toolkit written in Python.

GPT-GNN

Code for KDD'20 "Generative Pre-Training of Graph Neural Networks"

Graph_Transformer_Networks

Graph Transformer Networks (Authors' PyTorch implementation for the NeurIPS 19 paper)

GraphFormers

GraphMAE

GraphMAE: Self-Supervised Masked Graph Autoencoders in KDD'22

GraphMAE2

GraphMAE2: A Decoding-Enhanced Masked Self-Supervised Graph Learner in WWW'23

Graphormer

Graphormer is a deep learning package that allows researchers and developers to train custom models for molecule modeling tasks. It aims to accelerate the research and application in AI for molecule science, such as material design, drug discovery, etc.

KPConv-PyTorch

Kernel Point Convolution implemented in PyTorch

LoFTR

Code for "LoFTR: Detector-Free Local Feature Matching with Transformers", CVPR 2021

m3ae_public

Multimodal Masked Autoencoders (M3AE): A JAX/Flax Implementation

MinkowskiEngine

Minkowski Engine is an auto-diff neural network library for high-dimensional sparse tensors

MSencoding

CNN-GNN encoder for tandem MS spectra

OpenBLAS

OpenBLAS is an optimized BLAS library based on GotoBLAS2 1.13 BSD version.

PASS

Proteome Assembler with Short Sequence peptide

PepNet

PoinTr

[ICCV 2021 Oral] PoinTr: Diverse Point Cloud Completion with Geometry-Aware Transformers

PROSPECT

Proteomics Mass Spectrometry Dataset for Machine Learning

qupath

QuPath - Bioimage analysis & digital pathology

snake

Code for "Deep Snake for Real-Time Instance Segmentation" CVPR 2020 oral

spectralis

spectrum_utils

Python package for efficient mass spectrometry data processing and visualization

SuperPointPretrainedNetwork

PyTorch pre-trained model for real-time interest point detection, description, and sparse tracking (https://arxiv.org/abs/1712.07629)

transformer-xl

TS-Conv

Task-wise Sampling Convolutions for Arbitrary-Oriented Object Detection in Aerial Images

valis

Virtual Alignment of pathoLogy Image Series