leekh7411

slot_attention

SparsemaxPytorch

SparseMax activation function implementation (ICML 2016) (PyTorch)

RaptorX-Contact

Deep residual neural network for protein contact/distance prediction developed by Xu group

LightGBM

A fast, distributed, high performance gradient boosting (GBT, GBDT, GBRT, GBM or MART) framework based on decision tree algorithms, used for ranking, classification and many other machine learning tasks.

protein-interaction-network

Computes a molecular graph for protein structures.

jupyter-renderers

Renderers and renderer extensions for JupyterLab

tape-neurips2019

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

SPOT-RNA

RNA Secondary Structure Prediction using an Ensemble of Two-dimensional Deep Neural Networks and Transfer Learning.

jraph

A Graph Neural Network Library in Jax

dm-fonts

DM Sans, DM Serif

transformers

🤗 Transformers: State-of-the-art Machine Learning for Pytorch, TensorFlow, and JAX.

DeepRC

DeepRC: Immune repertoire classification with attention-based deep massive multiple instance learning

ensembleCNV

tso_cnv

Copy number variation detection for TruSightOne capture

dudeml

detection of duplications and deletions using Python based machine learning techniques

tape

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

DeepBindToKeras

Convert DeepBind models to Keras

deeplearning-biology

A list of deep learning implementations in biology

DeepBind-with-PyTorch

CNN architecture for predicting DNA binding sites for Transcription Factors

google-research

Google Research

RNA-seq_Splicing_Analysis

sra-tools

SRA Tools

aptasuite

A full-featured bioinformatics software collection for the comprehensive analysis of aptamers in HT-SELEX experiments.

RaptRanker

GraphProt2

Modelling RBP binding preferences to predict RPB binding sites

gcmc

Re-Implement "Graph Convolutional Matrix Completion" (PyTorch and PyTorch Geometric)

gc-mc

mgcnn

Multi-Graph Convolutional Neural Networks

deepchem

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

standardized_dataset

Curated structures submitted to the RNA-Puzzles experiment. Download as a zip file https://github.com/mmagnus/RNA-Puzzles-submission/archive/master.zip