Shunsuke-1994's starred repositories

alphafold3-pytorch

Implementation of Alphafold 3 in Pytorch

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AptaDiff

init commit

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RiboDiffusion

ISMB-24/Bioinformatics: Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models

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benchmark_VAE

Unifying Variational Autoencoder (VAE) implementations in Pytorch (NeurIPS 2022)

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generative-ai-for-beginners

18 Lessons, Get Started Building with Generative AI 🔗 https://microsoft.github.io/generative-ai-for-beginners/

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RiNALMo

RiboNucleic Acid (RNA) Language Model

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EternaFold

Improving RNA structure prediction through multitask learning on diverse crowdsourced data.

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draw_rna

Draw RNA secondary structures in python.

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evo

Biological foundation modeling from molecular to genome scale

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circuitree

Gene circuit design using Monte Carlo tree search

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rna3db

A dataset for training and benchmarking deep learning models for RNA structure prediction

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geometric-rna-design

gRNAde: Geometric Deep Learning for 3D RNA inverse design

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REPrise

REPrise is de novo interspersed repeat detection software.

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fepsuite

Software package for FEP

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learn-aws-by-coding

コードで学ぶAWS入門

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PyDESeq2

A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.

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RNAProt

Modelling RBP binding preferences to predict RPB binding sites

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patchworklib

Patchwork for matplotlib: A subplot manager for intuitive layouts in matplotlib, seaborn, and plotnine.

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boltzmann_generators

A repository for the final project implementing/applying Boltzmann generators for Computational Statistical Physics (PHYS 7810) at CU Boulder

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PyAutoFEP

PyAutoFEP: an automated FEP workflow for GROMACS integrating enhanced sampling methods

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LoRA

Code for loralib, an implementation of "LoRA: Low-Rank Adaptation of Large Language Models"

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pyhmmer

Cython bindings and Python interface to HMMER3.

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ghibli

Studio Ghibli colour palettes

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fr3d-python

Python implementation of the FR3D software for searching and annotating RNA 3D structures

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