Jean Vila

icon indicating a website link https://www.jeanccvila.com/ icon indicating an email [email protected]

icon company Stanford University icon location Stanford icon location Ecology and Evolutionary Biology PhD student at Yale. Interested in Evolutionary Ecology, Microbial Population Biology and Metabolism.

Results 3 issues of Jean Vila

Extracting fluxes using slim_optimize

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So I though i would share an extensions to slim_optimize that has proven helpful for what i suspect is a fairly common task when performing FBA. I don't know if...

cookbook

Passaging Resource when refresh = TRUE

In the passage function, new resources are not being diluted during passaging if refresh = True. Is this intentional? Line 316 in ```__init__.py```

Sampling too few cells (by 1) in the passage function.

Line 309 of __init__.py. ``` N[:,k] += np.random.multinomial(int(scale*N_tot[j]*f[k,j]),(self.N/N_tot).values[:,j])*1./scale ``` should probably be ``` N[:,k] += np.random.multinomial(round(scale*N_tot[j]*f[k,j]),(self.N/N_tot).values[:,j])*1./scale ``` Int convert a float to an integer by truncating the decimal part which...