Introduction Biomass reaction table importer Context builder Context exporter Context importer Convert Model Annotation Draft recon Draft recon EC number table importer Entity ID table importer FBA Flux Table Analysis Flux table importer FVA Gap filler Isolate finder KOA KOA result extractor Medium table importer Network exporter Network importer Network merger Orphan remover Phenotype table importer Reaction adder Reaction remover Smart json modificator (cobra) Transporter adder Twin annotator Twin builder Twin exporter Twin flattener Twin importer Twin reducer XML/Matlab to JSON
Technical Documentation
Resources
Tasks
Protocols
Convert Model Annotation
This task adds metabolites and reactions identifiers (ChEBI, Rhea and ec-number) to a model
Convert annotation task class
Complete the annotation of a metabolic model thanks to internal correspondence tables. This task can add missing identifiers to metabolics and reactions. For metabolites, it adds ChEBI identifiers. For reactions, it can add Rhea identifiers and EC numbers.
Input
Model
The model to annotate
Configuration
metabolites_id
What is the type of metabolite 'id'?
stringBiGG Literal_name Other metabolites_name
What is the type of metabolite 'name'?
stringBiGG Literal_name Other reaction_id
What is the type of reaction 'id'?
stringBiGG Other reaction_name
What is the type of reaction 'name'?
stringBiGG Other