peptide

EDAPINENUT/ppflow

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

BigDataBiology/macrel

Predict AMPs in (meta)genomes and peptides

lightdock/lightdock-rust

A Rust implementation of the LightDock macromolecular docking software

ylab-hi/ScanNeo2

Snakemake-based computational workflow for neoantigen prediction from diverse sources

mpc-bioinformatics/ProtGraph

ProtGraph - A Graph-Generator for Proteins

abrechts/Phoenix-ELN

Electronic lab notebook for organic chemistry

lsbnb/amp_gan

The GAN model for designing AMP

rochoa85/mPARCE

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

ProteinQure/visualize_HW

Python script to visualize helical wheels based on input sequence.

AspirinCode/AMPTrans-lstm

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

dzjxzyd/pLM4ACE

mindleaving/genome-tools

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

ghattab/CMANGOES

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

pgarrett-scripps/ProteinCleaverStreamlitApp

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

Bibhuprasadbehera/Peptaloid-database

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

lemieux-lab/pepid

Highly customizable research-oriented peptide search engine

Rapid-Deployment-Vaccine-Collaborative/Gen-12

SARS-CoV-2 Peptide Vaccine, Gen 12

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.

gdelrioifc/AMPFeatureSelection

Wrapper-method to select sub-set of features for classifying antimicrobial peptides

hgb-bin-proteomics/CandidateSearch

Proof-of-concept implementation of a search engine that uses sparse matrix multiplication to identify the best peptide candidates for a given mass spectrum.

hgb-bin-proteomics/CandidateVectorSearch

Searching for peptide candidates using sparse matrix + matrix/vector multiplication.

jeanmanguy/peptideview

📦 R package to visualise peptide sequences

pritindra/PyPep_Toolbox

A set of tools for different calculation of sequences of peptide, dna, rna, etc.

Rapid-Deployment-Vaccine-Collaborative/Gen-11

SARS-CoV-2 Peptide Vaccine, Gen 11

Wortax/ABM

Peptide Mapping in Genome and peptide Detection in Transcriptomes

JoshuaKoopmans/SignalPeptideClassifier

Given files with sequences containing signal peptides and sequences not containing signal peptides, multiple classifiers were tested to see which performs best in the classification of signal peptide sequences.

hgb-bin-proteomics/CandidateVectorSearch_template

Template repository for custom backends in MS Annika.