From Optflux
Warning: You are not logged in. Your IP address will be publicly visible if you make any edits. If you log in or create an account, your edits will be attributed to your username, along with other benefits.
The edit can be undone.
Please check the comparison below to verify that this is what you want to do, and then save the changes below to finish undoing the edit.
Latest revision | Your text | ||
Line 5: | Line 5: | ||
Assuming the pseudo-steady state hypothesis we have | Assuming the pseudo-steady state hypothesis we have | ||
− | A*v = 0 | + | A*v = 0 |
− | + | An*Vn+Am*Vm = 0, where "m" represents measured fluxes matrices | |
− | |||
The following set of methods is available in the public version of the plug-in: | The following set of methods is available in the public version of the plug-in: | ||
− | * If the rank of the model stoichiometric matrix ( | + | * If the rank of the model stoichiometric matrix (Am) < unknown rates the system is under-determined. |
** Available Methods: | ** Available Methods: | ||
* Flux Balance Analysis; | * Flux Balance Analysis; | ||
− | + | * Null Space Method; | |
* Tight Bounds Calculation. | * Tight Bounds Calculation. | ||
− | * If the rank of the model stoichiometric matrix ( | + | * If the rank of the model stoichiometric matrix (Am) == unknown rates the system is determined. |
There are no no linear dependencies between the rows. | There are no no linear dependencies between the rows. | ||
** Available Methods: | ** Available Methods: | ||
− | + | * Null Space Method. | |
− | + | * If the rank of the model stoichiometric matrix (Am) < number of metabolites the system is over-determined. | |
− | * If the rank of the model stoichiometric matrix ( | ||
Some rows of the stoichiometric matrix are linear dependent. | Some rows of the stoichiometric matrix are linear dependent. | ||
** Available Methods: | ** Available Methods: | ||
− | + | * Null Space Method. | |
− | + | ||
=== First step === | === First step === | ||
Line 66: | Line 64: | ||
[[Image:MFACreateFluxMeasures4.png]] | [[Image:MFACreateFluxMeasures4.png]] | ||
− | |||
− | |||
==== Third step b ==== | ==== Third step b ==== | ||
Line 93: | Line 89: | ||
[[Image:MFAWizard3.png]] | [[Image:MFAWizard3.png]] | ||
− | The third wizard step will show a set of methods to solve the MFA(depending on the type of system) | + | The third wizard step will show a set of methods to solve the MFA(depending on the type of system). |
− | + | [[Image:MFAWizard4a.png]] | |
− | |||
=== Fourth step - FBA/Linear Programming === | === Fourth step - FBA/Linear Programming === | ||
Line 108: | Line 103: | ||
[[Image:MFAWizard5a.png]] | [[Image:MFAWizard5a.png]] | ||
− | + | === Fourth step - Null space Method === | |
Select the null space method and press Finish. | Select the null space method and press Finish. | ||
Line 118: | Line 113: | ||
[[Image:MFAWizard6a.png]] | [[Image:MFAWizard6a.png]] | ||
− | |||
=== Fourth step - Tight Bounds === | === Fourth step - Tight Bounds === | ||
Select tight Bounds and press Finish. | Select tight Bounds and press Finish. | ||
− | [[Image: | + | [[Image:MFAWizard4c.png]] |
After select the MFA Solution datatype on the clipboard. | After select the MFA Solution datatype on the clipboard. | ||
[[Image:MFAWizard7a.png]] | [[Image:MFAWizard7a.png]] | ||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− | |||
− |