yuqing-feng

BLEUnlock

Lock/unlock your Mac with your iPhone, Apple Watch, or any other Bluetooth LE devices

ColabFold

Making Protein folding accessible to all!

RFdiffusion

Code for running RFdiffusion

OpenBioMed

progen

Official release of the ProGen models

DNABERT

DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome

anvio

An analysis and visualization platform for 'omics data

CLEAN

CLEAN: a contrastive learning model for high-quality functional prediction of proteins

paml

PAML is a program package for model fitting and phylogenetic tree reconstruction using DNA and protein sequence data. Please report only **technical issues** on this repository (e.g., compiling, programs abort or do not run at all, etc.). Problems with input data and general questions should be posted at https://groups.google.com/g/pamlsoftware?pli

ISEScan

A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome

dfast_core

DDBJ Fast Annotation and Submission Tool

Agora

Algorithm For Gene Order Reconstruction in Ancestors

MobileGeneticElementDatabase

Contains a fasta format database of a large variety of mobile genetic elements and an annotation file

hydramp

HydrAMP: a deep generative model for antimicrobial peptide discovery

midas

PeptideBERT

Transformer Based Language Model for Peptide Property Prediction

fargene

sAMPpred-GAT

The implementation of the paper sAMPpred-GAT: Prediction of Antimicrobial Peptide by Graph Attention Network and Predicted Peptide Structure

Deep_AMP

Generator and regressor neural networks for antimicrobial peptides

DeepProZyme

DeepECtransformer

agricolae

Statistical Procedures for Agricultural Research

SmORFinder

A command line tool to identify and annotate small proteins in microbial sequencing datasets.

ML-guided-discovery-and-design-of-non-hemolytic-peptides

Classification models for hemolytic nature and hemolytic activity predictions in peptide/protein sequences

iAMPCN

MiPepid

multi-bacpipe

A convenient pipeline for processing of multi-strain bacterial RNA-Seq experiments

RanSEPs

RanSEPs provides a framework for genome re-annotation and novel small proteins detection adjusting the search to different genomic features that govern protein-coding capabilities

ARGNet

smORFer

stm