6.1.1.1.1.4. pytfa.analysis.variability
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Variability analysis
6.1.1.1.1.4.1. Module Contents¶
6.1.1.1.1.4.1.1. Functions¶
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Returns the ids of reactions that can both carry net flux in the forward or |
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Takes a ThermoModel and performs enumeration of the directionality profiles |
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turns a list of booleans into a string |
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Performs variability analysis, gicven a variable type |
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WIP. |
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6.1.1.1.1.4.1.2. Attributes¶
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- pytfa.CPU_COUNT¶
- pytfa.BEST_THREAD_RATIO¶
- pytfa.find_bidirectional_reactions(va, tolerance=1e-08)¶
Returns the ids of reactions that can both carry net flux in the forward or backward direction.
- Parameters
va –
- A variability analysis, pandas Dataframe like so:
maximum minimum
6PGLter -8.330667e-04 -8.330667e-04 ABUTt2r 0.000000e+00 0.000000e+00 ACALDt 0.000000e+00 0.000000e+00
- Returns
- pytfa.find_directionality_profiles(tmodel, bidirectional, max_iter=10000.0, solver='optlang-glpk')¶
Takes a ThermoModel and performs enumeration of the directionality profiles
- Parameters
tmodel –
max_iter –
- Returns
- pytfa._bool2str(bool_list)¶
turns a list of booleans into a string
- Parameters
bool_list – ex: ‘[False True False False True]’
- Returns
‘01001’
- pytfa._variability_analysis_element(tmodel, var, sense)¶
- pytfa.variability_analysis(tmodel, kind='reactions', proc_num=BEST_THREAD_RATIO)¶
Performs variability analysis, gicven a variable type
- Parameters
tmodel –
kind –
proc_num –
- Returns
- pytfa.parallel_variability_analysis(tmodel, kind='reactions', proc_num=BEST_THREAD_RATIO)¶
WIP.
- Parameters
tmodel –
kind –
proc_num –
- Returns
- pytfa.calculate_dissipation(tmodel, solution=None)¶