From Optflux
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| − | + | == HowTos for OptFlux 2 == | |
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| − | [[How to | + | *[[How to create a new model/project from SBML]] |
| − | [[How to | + | *[[How to create a new model/project from text files]] |
| − | [[ | + | *[[How to save and load projects]] |
| − | + | *[[How to export models to SBML]] | |
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| − | [[How to | + | *[[How to export models to Flat Files]] |
| − | [[ | + | *[[Interaction with Cell Designer]] |
| − | [[ | + | *[[How to load a CD model for visualization]] |
| − | [[ | + | *[[How to export a model to CD SBML (with results)]] |
| + | *[[How to do a simulation overlap with a CD model]] | ||
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| − | + | *[[How to do a wild type simulation]] | |
| − | + | *[[How to do a mutant simulation]] | |
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| − | + | *[[Reaction deletion]] | |
| + | *[[Gene knockout]] | ||
| − | + | *[[Environmental conditions]] | |
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| − | [[How to calculate a Simplified Model]] | + | *Flux Variability Analysis |
| + | |||
| + | *[[How to Calculate Flux Limits]] | ||
| + | *[[How to generate a Flux Variability Graph]] | ||
| + | |||
| + | *Essential genes/reactions | ||
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| + | *[[Determining essential genes/reactions]] | ||
| + | *[[Loading from file]] | ||
| + | |||
| + | *[[How to calculate a Simplified Model]] | ||
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[[How to calculate critical genes/reactions]] | [[How to calculate critical genes/reactions]] | ||
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| − | [[How to optimize the knockout set]] | + | *[[How to optimize the knockout set]] |
| − | [[Reaction deletions]] | + | *[[Reaction deletions]] |
| − | [[Gene knockouts]] | + | *[[Gene knockouts]] |
| − | + | Formats specifications | |
| + | |||
| + | *[[Flat files format specifications]] | ||
| + | *[http://sbml.org/Documents/Specifications SBML] | ||
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[[How to use Multiobjective strain optimization]] | [[How to use Multiobjective strain optimization]] | ||
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| + | [[Plugins]] | ||
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| + | *[[EFM4OptFlux]] | ||
| + | *[[MFA4OptFlux]] | ||
| + | *[[OptKnock4OptFlux]] | ||
| + | *[[TNA4OptFlux]] | ||
| + | *[[RegulatoryTool]] | ||
| + | *[[OverUnder4OptFlux]] | ||
Latest revision as of 11:31, 29 July 2011
HowTos for OptFlux 2[edit]
*How to load a CD model for visualization *How to export a model to CD SBML (with results) *How to do a simulation overlap with a CD model
*Reaction deletion *Gene knockout
- Flux Variability Analysis
*How to Calculate Flux Limits *How to generate a Flux Variability Graph
- Essential genes/reactions
*Determining essential genes/reactions *Loading from file
*Reaction deletions *Gene knockouts
Formats specifications
*Flat files format specifications *SBML
*EFM4OptFlux *MFA4OptFlux *OptKnock4OptFlux *TNA4OptFlux *RegulatoryTool *OverUnder4OptFlux