Difference between revisions of "Create database from diagram (analysis)"
From BioUML platform
(Automatic synchronization with BioUML) |
(Automatic synchronization with BioUML) |
||
| (2 intermediate revisions by one user not shown) | |||
| Line 4: | Line 4: | ||
:[[Institute of Systems Biology]] | :[[Institute of Systems Biology]] | ||
;Class | ;Class | ||
| − | :{{Class|biouml.plugins. | + | :{{Class|biouml.plugins.metabolics.analysis.DiagramToDatabase}} |
;Plugin | ;Plugin | ||
| − | :[[Biouml.plugins. | + | :[[Biouml.plugins.metabolics (plugin)|biouml.plugins.metabolics (Metabolics Analysis)]] |
==== Description ==== | ==== Description ==== | ||
| − | Create database from diagram | + | Create database from diagram. |
==== Parameters: ==== | ==== Parameters: ==== | ||
* '''Diagram''' – Path to the diagram you want to convert to the database | * '''Diagram''' – Path to the diagram you want to convert to the database | ||
| + | * '''ID extractor''' – An algorithm which matches diagram IDs (diagram-specific) | ||
| + | * '''Species''' – Species | ||
| + | * '''Use threshold for stop-molecules''' – Uncheck to specify stop-molecules list explicitly | ||
| + | * '''Stop-molecule threshold''' – If molecule participates in more reactions than specified it will be marked as stop-molecule | ||
| + | * '''Stop molecules list''' – Path to the table containing stop-molecules IDs | ||
| + | * '''Stop-reaction threshold''' – If reaction has more reactants or products than the specified number, it will be marked as ignored | ||
* '''Database name''' – The name of the newly-created database | * '''Database name''' – The name of the newly-created database | ||
Latest revision as of 18:14, 9 December 2020
- Analysis title
Create database from diagram
- Provider
- Institute of Systems Biology
- Class
DiagramToDatabase- Plugin
- biouml.plugins.metabolics (Metabolics Analysis)
[edit] Description
Create database from diagram.
[edit] Parameters:
- Diagram – Path to the diagram you want to convert to the database
- ID extractor – An algorithm which matches diagram IDs (diagram-specific)
- Species – Species
- Use threshold for stop-molecules – Uncheck to specify stop-molecules list explicitly
- Stop-molecule threshold – If molecule participates in more reactions than specified it will be marked as stop-molecule
- Stop molecules list – Path to the table containing stop-molecules IDs
- Stop-reaction threshold – If reaction has more reactants or products than the specified number, it will be marked as ignored
- Database name – The name of the newly-created database
