modelturnedgeek Goto Github PK

pymsa

Scoring multiple sequence alignments with Python

pymsaviz

MSA(Multiple Sequence Alignment) visualization python package for sequence analysis

raja

RAJA Performance Portability Layer (C++)

reviewme

rf_diffusion_all_atom

Public RFDiffusionAA repo

ribodiffusion

Tertiary Structure-based RNA Inverse Folding with Generative Diffusion Models

rldock

rna-fm

RNA foundation model

rna-llm-comparison

repository that holds the code to build a secondary structure RNA predictor model based on LLM representations.

rna2dviz

rnaflow

RNAFlow: RNA Structure & Sequence Design via Inverse Folding-Based Flow Matching

rnapolis-py

A Python library containing RNA-related bioinformatics functions and classes.

robin

An analysis of a new experimentally-derived nucleic acid binding chemical library

rosettafold-all-atom

scanfold

ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by first scanning a single input sequence to identify regions generatg neg thermodynamic z-scores (a hallmark of functional RNA sequences), subsequently identifying specific base pairs responsible for low z-scores.

seqprop

Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor

shap

A game theoretic approach to explain the output of any machine learning model.

stablediffusion

High-Resolution Image Synthesis with Latent Diffusion Models

steps_bioinformatics

streamlit

Streamlit — A faster way to build and share data apps.

streamlit-example

Example Streamlit app that you can fork to test out share.streamlit.io

tcoffee

A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence

tensorflow-model

textbook_quality

Generate textbook-quality LLM pretraining data

typescript-js

vfold2d_v2.5

Vfold2d (version 2.5) by Shi-Jie Chen Research Group

viennarna

The ViennaRNA Package

viralmsa

Reference-guided multiple sequence alignment of viral genomes

warp-ctc

Fast parallel CTC.

what_are_embeddings

A deep dive into embeddings starting from fundamentals