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peptide

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chao1224 /ChatDrug

LLM for Drug Editing, ICLR 2024

retrieval structure molecule motif protein conversation editing drug-discovery drug secondary-structure peptide small-molecule llm chatgpt chatgpt3 drug-editing domain-feedback

UpdatedMay 28, 2024
Python

BigDataBiology /macrel

Predict AMPs in (meta)genomes and peptides

bioinformatics genomics biology metagenomics ngless peptide

UpdatedJan 23, 2025
Python

EDAPINENUT /ppflow

This repository is the official code source of PPFlow: Target-Aware Peptide Design with Torsional Flow Matching (ICML2024)

generative-model drug-design peptide generative-ai flow-matching

UpdatedMar 10, 2025
Python

lightdock-rust

lightdock /lightdock-rust

A Rust implementation of the LightDock macromolecular docking software

bioinformatics protein-structure protein docking protein-structure-prediction peptide macromolecular-modeling protein-peptide

UpdatedApr 19, 2024
Rust

ylab-hi /ScanNeo2

Snakemake-based computational workflow for neoantigen prediction from diverse sources

snakemake gene-fusion indels peptide snakemake-workflow splicing epitope neoantigens exitron neoepitope

UpdatedMar 12, 2025
Python

mpc-bioinformatics /ProtGraph

ProtGraph - A Graph-Generator for Proteins

graph pypi python3 protein bioconda fasta uniprot peptide

UpdatedFeb 14, 2025
Python

abrechts /Phoenix-ELN

Electronic lab notebook for organic chemistry

chemistry notebook lab electronic organic peptide organometallic

UpdatedMar 11, 2025
Visual Basic .NET

rochoa85 /mPARCE

mPARCE: Protocol for iterative optimization of modified peptides bound to protein targets

design chemistry computational peptide

UpdatedOct 19, 2022
Roff

lsbnb /amp_gan

The GAN model for designing AMP

deep-learning gan wgan-gp peptide antimicrobial

UpdatedJan 22, 2022
Python

ProteinQure /visualize_HW

Python script to visualize helical wheels based on input sequence.

visualization protein-design peptide helical-wheels alpha-helices

UpdatedMar 27, 2019
Python

dzjxzyd /pLM4ACE

peptide peptide-prediction peptide-features protein-language-model bioactivity bioactive-pepeptide

UpdatedAug 20, 2023
Jupyter Notebook

AspirinCode /AMPTrans-lstm

Application of deep generative model discovers novel and diverse functional peptides against microbial resistance

transformer lstm peptide deep-generative-model

UpdatedDec 22, 2022
Python

mindleaving /genome-tools

Tools for exploration and analysis of biochemical data like genomics and proteins

genomics pdb molecular-structures molecule molecular-dynamics molecular-simulation genomic-data-analysis genomics-visualization pdb-files peptide

UpdatedJun 10, 2023
C#

ghattab /CMANGOES

A parametric approach for molecular encodings using multilevel atomic neighborhoods applied to peptide classification

encoding machine-learning fingerprint protein fingerprinting fingerprinting-algorithm peptide molecular-fingerprints

UpdatedJan 10, 2023
Jupyter Notebook

ProteinCleaverStreamlitApp

pgarrett-scripps /ProteinCleaverStreamlitApp

Protein Cleaver is a versatile tool for protein analysis and digestion.

protein protein-sequences fasta proteomics mass-spectrometry peptide-identification peptides peptide peptide-sequences digestion streamlit proteomics-data-analysis streamlit-cloud

UpdatedMar 28, 2024
Python

TimothyOlsson /DD2404-project

Project for course DD2404. The project focuses on creating a classifier for proteins with signal peptides, using machine learning. Currently, the scripts are based on Convolutional neural networks, but I might implement a GAN and a Hidden Markov Model too.

classifier hmm bioinformatics cnn gan signal peptide

UpdatedJan 15, 2018
Python

Bibhuprasadbehera /Peptaloid-database

Contains relevant project files to publicly available Peptide Alkaloid database "Peptaloid"

database drug-discovery peptide admet biological-database alkaloid peptide-alkaloid peptaloid

UpdatedSep 27, 2024
JavaScript

Rapid-Deployment-Vaccine-Collaborative /Gen-12

SARS-CoV-2 Peptide Vaccine, Gen 12

open-source open-science public-health global-health immunology antigen rapid-development vaccine peptide chitosan rapid-deployment intranasal vaccinology

UpdatedFeb 19, 2022

lemieux-lab /pepid

Highly customizable research-oriented peptide search engine

python bioinformatics proteomics peptide-identification peptide

UpdatedJul 11, 2024
Python

raghavagps /hoppred

HopPred: A method for scanning peptide hormones in a protein

machine-learning prediction hormones peptide

UpdatedFeb 21, 2025
Python

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