metabolic-pathways

Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks

A tool for representing genomic potential and transcriptomic expression into KEGG pathways

Go REST API to replace Genbank, Uniprot, Rhea, and CHEMBL

Toolkit for Modelling and Simulation of Gene Expressions and Metabolism

Ⓜ️ Metabolic network completion

Diversity-based enumeration of optimal context-specific metabolic networks

Pipeline plugins for PALADIN, providing HPC support, abundance (taxonomy, go terms), customized reports, etc

Identifying reprogrammed metabolic routes given omics data.

MNXref: Reconciliation of metabolites and biochemical reactions for metabolic networks

A basic network of human metabolism, including key enzymes, intermediates, and hormonal influences

Cli interface to predict gene knockout targets with an heterologous pathway

Serves as the backend code for https://www.curatemetabolicpathways.com

prepBioCyc: Preprocess BioCyc files

leADS: improved metabolic pathway inference based on active dataset subsampling

Metabolic pathway inference using non-negative matrix factorization with community detection

Web application of metabolics pathway visualisation, for the Gencovery business (https://gencovery.com/), created during the PDP project during the M1 of the Master of Bioinformatics, in Bordeaux.

CHAP: Modeling Metabolic Pathways as Groups (with Augmentation)

reMap: relabeling metabolic pathway data with groups to improve prediction outcomes

PathVisio plugin to find relevant metabolic reactions from Rhea