Pinned Repositories
alphaflow
AlphaFold Meets Flow Matching for Generating Protein Ensembles
alphafold
Open source code for AlphaFold.
AMAS
Calculate summary statistics and manipulate multiple sequence alignments
archs4py
Python package to load and query ARCHS4 data
arxiv-vanity
Renders papers from arXiv as responsive web pages so you don't have to squint at a PDF.
Auto-GPT
An experimental open-source attempt to make GPT-4 fully autonomous.
kaggle-api
Official Kaggle API
openfold
Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2
RLDOCK
warp-ctc
Fast parallel CTC.
modelturnedgeek's Repositories
modelturnedgeek/alphaflow
AlphaFold Meets Flow Matching for Generating Protein Ensembles
modelturnedgeek/alphafold
Open source code for AlphaFold.
modelturnedgeek/AMAS
Calculate summary statistics and manipulate multiple sequence alignments
modelturnedgeek/archs4py
Python package to load and query ARCHS4 data
modelturnedgeek/bio-diffusion
A PyTorch hub of denoising diffusion probabilistic models designed to generate novel biological data
modelturnedgeek/bx-python
Tools for manipulating biological data, particularly multiple sequence alignments
modelturnedgeek/DeepSeek-Coder
DeepSeek Coder: Let the Code Write Itself
modelturnedgeek/DiffDock
Implementation of DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking
modelturnedgeek/evo
DNA foundation modeling from molecular to genome scale
modelturnedgeek/GenerRNA
modelturnedgeek/gromacs
Public/backup repository of the GROMACS molecular simulation toolkit. Please do not mine the metadata blindly; we use https://gitlab.com/gromacs/gromacs for code review and issue tracking.
modelturnedgeek/kalign
A fast multiple sequence alignment program.
modelturnedgeek/LinearFold
The new source code of the LinearFold, linear-time prediction for RNA secondary structures
modelturnedgeek/Medical-RAG-using-Bio-Mistral-7B
This is a RAG implementation using Open Source stack. BioMistral 7B has been used to build this app along with PubMedBert as an embedding model, Qdrant as a self hosted Vector DB, and Langchain & Llama CPP as an orchestration frameworks.
modelturnedgeek/micrograd
A tiny scalar-valued autograd engine and a neural net library on top of it with PyTorch-like API
modelturnedgeek/mlx
MLX: An array framework for Apple silicon
modelturnedgeek/modelturnedgeek.github.co
modelturnedgeek/modelturnedgeek.github.io
modelturnedgeek/Molecular-Dynamics-on-AWS-and-Cloud-Computing
Molecular Dynamics on Google Compute Engine, AWS (Amazon Web Services) and other Cloud Computing services
modelturnedgeek/OpenComplex
Trainable PyTorch framework for developing protein, RNA and complex models.
modelturnedgeek/papers-for-molecular-design-using-DL
List of molecular design using Generative AI and Deep Learning
modelturnedgeek/protein_scoring
Generating and scoring novel enzyme sequences with a variety of models and metrics
modelturnedgeek/pymod
PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.
modelturnedgeek/rf_diffusion_all_atom
Public RFDiffusionAA repo
modelturnedgeek/RiboDiffusion
Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models
modelturnedgeek/rna-llm-comparison
repository that holds the code to build a secondary structure RNA predictor model based on LLM representations.
modelturnedgeek/RoseTTAFold-All-Atom
modelturnedgeek/tcoffee
A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence
modelturnedgeek/ViralMSA
Reference-guided multiple sequence alignment of viral genomes
modelturnedgeek/what_are_embeddings
A deep dive into embeddings starting from fundamentals