Pinned Repositories
ainaadekunle.github.io
The website of Aina Adekunle
alphafold
Open source code for AlphaFold.
applied-ml
📚 Papers & tech blogs by companies sharing their work on data science & machine learning in production.
Backbone-linkage-of-cyclic-peptides
bash
Run bash commands from python
BetaHelixDesign
Program for remodeling and design of tau beta-helix protein scaffold
Blog
Repository for my blog on Data Insight @ datainsightonline.com
ColabFold
Making Protein folding accessible to all via Google Colab!
ml-road
Machine Learning Resources, Practice and Research
Prothon
A Python package for efficient comparison of protein ensembles
ainaadekunle's Repositories
ainaadekunle/ainaadekunle.github.io
The website of Aina Adekunle
ainaadekunle/alphafold
Open source code for AlphaFold.
ainaadekunle/applied-ml
📚 Papers & tech blogs by companies sharing their work on data science & machine learning in production.
ainaadekunle/Backbone-linkage-of-cyclic-peptides
ainaadekunle/BetaHelixDesign
Program for remodeling and design of tau beta-helix protein scaffold
ainaadekunle/Blog
Repository for my blog on Data Insight @ datainsightonline.com
ainaadekunle/ColabFold
Making Protein folding accessible to all via Google Colab!
ainaadekunle/Prothon
A Python package for efficient comparison of protein ensembles
ainaadekunle/DeepLearningLifeSciences
Example code from the book "Deep Learning for the Life Sciences"
ainaadekunle/EslamEklot.github.io
ainaadekunle/gmx_makecyclictop
This script makes a cyclic peptide or cyclic nucleotide topology file for GROMACS out of (specially prepared) linear molecule topology file
ainaadekunle/IgFold
Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies
ainaadekunle/mbar_pmf
A script that uses pyMBAR to calculate potential of mean force for a set of umbrella sampling data
ainaadekunle/ml-surveys
📋 Survey papers summarizing advances in deep learning, NLP, CV, graphs, reinforcement learning, recommendations, graphs, etc.
ainaadekunle/openawsem
An implementation of the AWSEM coarse-grained protein folding forcefield in OpenMM
ainaadekunle/openfold
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
ainaadekunle/OpenMM-MD
Lee-Ping's general purpose script for running OpenMM molecular dynamics simulations
ainaadekunle/papers_for_protein_design_using_DL
List of papers about Proteins Design using Deep Learning
ainaadekunle/protein-design-tutorials
Tutorials, cheat sheets, and other resources for computational methods for protein design.
ainaadekunle/Protein-InDelMaker
PyRosetta based package to make PDB files for specified mutations, insertions and deletions
ainaadekunle/py4e
Web site for www.py4e.com and source to the Python 3.0 textbook
ainaadekunle/pymbar
Python implementation of the multistate Bennett acceptance ratio (MBAR)
ainaadekunle/pymol-color-alphafold
PyMOL extension to color AlphaFold structures by confidence (pLDDT).
ainaadekunle/PyRosetta.notebooks
Jupyter Notebooks for learning the PyRosetta platform for biomolecular structure prediction and design
ainaadekunle/pyrosetta_help
Some scripts that I keep using over and over.
ainaadekunle/pytudes
Python programs to practice or demonstrate skills.
ainaadekunle/stable-diffusion
A latent text-to-image diffusion model
ainaadekunle/torchmd
End-To-End Molecular Dynamics (MD) Engine using PyTorch
ainaadekunle/TTClust
clusterize molecular dynamic trajectories (amber, gromacs, charmm, namd, pdb...)
ainaadekunle/ubcmds-transposed-marking
Transposed Marking solution via UBC MDS GitHub Enterprise API