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colabfold

Making Protein folding accessible to all!

comparative-genomics

conplex_dev

corason

Bioinformatic Tools for study Evolution of metabolic diversity

coverm

Read coverage calculator for metagenomics

covid19br

Confirmed cases and deaths of COVID-19 in Brazil, at municipal (city) level. Description of the data: https://github.com/wcota/covid19br/blob/master/DESCRIPTION.en.md and https://doi.org/10.1590/SciELOPreprints.362

dbscan-swa

deepbgc

BGC Detection and Classification Using Deep Learning

deept2

DeepT2 utilizes deep learning techniques to identify type II polyketide (T2PK) synthases KSβ and their corresponding T2PK product within bacterial genomes. The method leverages ESM2 to transform KSβ sequences into embeddings, which are employed to train two separate classifiers using multi-layer perceptron for both KSβ and T2PKs classification.

depht

Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences

dnamodannot

R toolbox for DNA Modifications filtering and annotation

drep

Rapid comparison and dereplication of genomes

druggpt

DrugGPT: A GPT-based Strategy for Designing Potential Ligands Targeting Specific Proteins

ecami

Simultaneous Classification and Motif Identification(eCAMI)

edirectcookbook

emapper2gbk

Convert GFF, fastas, annotation table and species name into Genbank.

embeddings_reproduction

emg-toolkit

MGnify API toolkit

enrichm

Toolbox for comparative genomics of MAGs

entap

Eukaryotic Non-Model Transcriptome Annotation Pipeline - Latest Release v0.10.8

entrez_qiime

A utility to generate input files for taxonomy assignment in QIIME from the NCBI database

environmental-exposure-ontology

Modular environmental exposures ontology

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

esm-variants

esp

etoxpred

A simple tool to predict the general toxicity and calculate the synthesize accessibility (SA) score for small molecules.

evodiff

Generation of protein sequences and evolutionary alignments via discrete diffusion models

evomining

exbert

A Visual Analysis Tool to Explore Learned Representations in Transformers Models

fa-nf

Functional annotation pipeline for proteins from non-model organisms implemented in Nextflow