HUMAnN (HMP Unified Metabolic Analysis Network)

medaka -- neural network-based tool from Oxford Nanopore Technologies for creating consensus sequences and calling variants from nanopore sequencing data. Polishes draft assemblies from Flye, miniasm,

2 shared topics • 1 shared operation

ProDy — Python library for protein dynamics analysis and structural bioinformatics. Provides elastic network models (GNM, ANM), principal component analysis (PCA) of structural ensembles and MD trajec

2 shared topics • 1 shared operation

ProteinMPNN — deep learning-based protein sequence design from backbone structures. Uses message passing neural networks to predict amino acid sequences that fold into a given 3D backbone. Supports fi

2 shared topics • 1 shared operation

Reactome graph database — EMBL-EBI curated biological pathway knowledgebase with Neo4j graph backend and REST API. Supports pathway enrichment analysis, over-representation testing, graph topology tra

2 shared topics • 1 shared operation

Remora is an Oxford Nanopore Technologies (ONT) tool for modified base calling from nanopore sequencing data. Trains neural network models to detect base modifications (5mC, 5hmC, m6A, pseudouridine,

2 shared topics • 1 shared operation