Pinned Repositories
alphafill
AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models can be more easily appreciated in terms of function and structure integrity.
alphafold
Open source code for AlphaFold.
alphafold2
To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released
bio_embeddings
[WIP] python package to embed protein sequences using different models (contextualized and not)
ColabFold
Making Protein folding accessible to all via Google Colab!
DeepSequence-PyTorch
egnn
gputil
A Python module for getting the GPU status from NVIDA GPUs using nvidia-smi programmically in Python
masif
MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
MEME
MEME motif-based sequence analysis tools (http://meme-suite.org), with FreeBSD tweaks
hmms117's Repositories
hmms117/alphafill
AlphaFill is an algorithm based on sequence and structure similarity that “transplants” missing compounds to the AlphaFold models. By adding the molecular context to the protein structures, the models can be more easily appreciated in terms of function and structure integrity.
hmms117/alphafold
Open source code for AlphaFold.
hmms117/alphafold2
To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released
hmms117/bio_embeddings
[WIP] python package to embed protein sequences using different models (contextualized and not)
hmms117/ColabFold
Making Protein folding accessible to all via Google Colab!
hmms117/DeepSequence-PyTorch
hmms117/egnn
hmms117/gputil
A Python module for getting the GPU status from NVIDA GPUs using nvidia-smi programmically in Python
hmms117/masif
MaSIF- Molecular surface interaction fingerprints. Geometric deep learning to decipher patterns in molecular surfaces.
hmms117/MEME
MEME motif-based sequence analysis tools (http://meme-suite.org), with FreeBSD tweaks
hmms117/neurips19-graph-protein-design
Generative Models for Graph-Based Protein Design
hmms117/openfold
Trainable PyTorch reproduction of AlphaFold 2
hmms117/protein-sequence-embedding-iclr2019
Source code for "Learning protein sequence embeddings using information from structure" - ICLR 2019
hmms117/tape-neurips2019
Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.
hmms117/ThermiaGenesisSmartControl
Smart control of Genesis heat pump based on electricity price
hmms117/UDSMProt
Protein sequence classification with self-supervised pretraining
hmms117/Uni-Fold
hmms117/Uni-Mol
A Universal 3D Molecular Representation Learning Framework