Pinned Repositories
Protein_Redesign
Complex-based Ligand-Binding Proteins Redesign by Equivariant Diffusion-based Generative Models
BayesWorkshop2021
Codon_optimization_app
Calculate %MaxMin of rare codon clusters
denss
Calculate electron density from a solution scattering profile
FREED
Fragment-based generative RL with Explorative Experience replay for Drug design (FREED)
helium_project
Python animation of Helium in 2 excited states by computing wavefunctions in time
heterodimer-interface-design
Designing beta-sheet HBnet interface on Rosetta Commons
ibm3202
Google Colab Tutorials for IBM3202
Ramachandran_classification
Classify Ramachandran constraints by plotting
TCGA-capture-RNASeq-analysis
This project examines differences in gene expression levels between polyA and capture methods applied to cancer tissues
ndnng's Repositories
ndnng/6th_workshop_advanced_sampling
ndnng/_2023_Pesce_IDPdesign
ndnng/_PAPER_ILVES-PC
ndnng/ashapesampler
R package for generating synthetic shapes and images using the α-shape sampler
ndnng/cg2all
Convert coarse-grained protein structure to all-atom model
ndnng/contrastive_planning
Code for the paper "Inference via Interpolation: Contrastive Representations Provably Enable Planning and Inference"
ndnng/Deep-VPS
ndnng/DeepFoldRNA
ndnng/DeepLNE
DeepLNE path-like ML CV
ndnng/DSMBind
ndnng/DSR
The code for NeurIPS 2023 paper DSR
ndnng/EBMs_Jarzynski
code for Efficient Training of Energy-Based Models Using Jarzynski Equality
ndnng/exprorer_msmd
MSMD (mixed-solvent molecular dynamics) engine and analysis tools
ndnng/extq
ndnng/FragFold
ndnng/gtalign-evaluation
GTalign evaluation scripts
ndnng/gtalign_alpha
GTalign, HPC protein structure alignment, superposition and search (alpha release)
ndnng/HCGNet
J-BHI 2024: Exploiting Hierarchical Interactions for Protein Surface Learning
ndnng/IMSI_LSS
IMSI hands-on workshop: Latent Space Simulators
ndnng/LapNet
Efficient and Accurate Neural-Network Ansatz for Quantum Monte Carlo
ndnng/LIT-SpaceDock
ndnng/MDAnalysisWorkshop2023
Materials for the 2023 (and maybe beyond) MDAnalysis workshops
ndnng/Oscillatory_Excitable_Opinion_Dynamics
ndnng/Path-mTCG
ndnng/PC_ali
Multiple sequence and structure aligner PC_ali
ndnng/PIPPack
Implementation of Protein Invariant Point Packer (PIPPack)
ndnng/PromptProtein
Code and Data for the paper: Multi-level Protein Structure Pre-training with Prompt Learning [ICLR 2023]
ndnng/Riemannian-geometry-for-efficient-analysis-of-protein-dynamics-data
ndnng/SCAN_IDR
ndnng/SMILES_Alignment
A Dynamic Programming Approach for the Alignment of Molecules