ZYZhang17

ZYZhang17's Stars

• HKUNLP/reparam-discrete-diffusion

  Reparameterized Discrete Diffusion Models for Text Generation

  Language:Python903

• ViennaRNA/ViennaRNA

  The ViennaRNA Package

  Language:C29678

• Edinburgh-Genome-Foundry/DnaChisel

  :pencil2: A versatile DNA sequence optimizer

  Language:Python21940

• hexavier/codon_optimization

  Using protein-per-mRNA differences among human tissues in codon optimization

  Language:Python53

• eternagame/EternaBench

  Evaluating RNA structure prediction using diverse thermodynamic prediction tasks and high-throughput datasets.

  Language:Jupyter Notebook143

• lipan6461188/RNA_Covariation

  A tutorial about RNA covary base pairs calling

  Language:Python51

• DasLab/RiboGraphViz

  Visualize global properties of large RNAs using GraphViz force-directed layout.

  Language:Jupyter Notebook208

• gtDMMB/RNAStructViz

  Visualization, comparison, and analysis of RNA secondary structures via a cross-platform GUI

  Language:C175

• cusbg/traveler

  Template-based RNA secondary structure visualization

  Language:PostScript239

• tseemann/prokka

  :zap: :aquarius: Rapid prokaryotic genome annotation

  Language:Perl823225

• fjossinet/kaknas

  A JavaFX app to visualize RNA alignments from Rfam database.

  Language:Kotlin6

• fjossinet/RNA-Science-Toolbox

  A platform to do RNA science

  Language:Jupyter Notebook279

• fjossinet/RNArtist

  With RNArtist, you construct a collection of RNA structures that can be gathered into RNA families, projects,...

  Language:Kotlin15810

• microsoft/evodiff

  Generation of protein sequences and evolutionary alignments via discrete diffusion models

  Language:Python48569

• OpenBMB/XAgent

  An Autonomous LLM Agent for Complex Task Solving

  Language:Python8.1k828

• ariloytynoja/pagan2-msa

  PAGAN2 multiple sequence aligner

  Language:C++84

• ariloytynoja/prank-msa

  Automatically exported from code.google.com/p/prank-msa

  Language:C++236

• epruesse/SINA

  SINA - Reference based multiple sequence alignment

  Language:C++414

• LinearDesignSoftware/LinearDesign

  The LinearDesign mRNA design software.

  Language:C++14753

• kblin/ncbi-acc-download

  Download files from NCBI Entrez by accession

  Language:Python1078

• karpathy/minGPT

  A minimal PyTorch re-implementation of the OpenAI GPT (Generative Pretrained Transformer) training

  Language:Python19.9k2.5k

• kblin/ncbi-genome-download

  Scripts to download genomes from the NCBI FTP servers

  Language:Python938175

• HazyResearch/hyena-dna

  Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena

  Language:Assembly57482

• sarisabban/RMSD

  Calculate the RMSD between two protein structures

  Language:Python10

• LucasSilvaFerreira/Deep_autoencoder_RNA_structure

  Using Convolutional AUTOENCODER to separate diferent RNA structures in the latent space

  Language:Jupyter Notebook1

• pinellolab/DNA-Diffusion

  🧬 Generative modeling of regulatory DNA sequences with diffusion probabilistic models 💨

  Language:Python35650

• sokrypton/ColabFold

  Making Protein folding accessible to all!

  Language:Jupyter Notebook1.9k479

• ttunja/Enformer_DNA_Diffusion

  Language:Jupyter Notebook51

• ncbi/datasets

  NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.

  Language:Jupyter Notebook35539

• spetti/SMURF

  Language:Python12813