

In [8]:

    
import cplex



In [1]:

    
import escher

Display a map E. coli central carbon metabolism.



In [2]:

    
escher.Builder('e_coli_core.Core metabolism').display_in_notebook()









    Out[2]:







  
  

  
  
    
  



  
Tip: Hover over an option to see more details about it.
View and build options
Identifiers: ID'sDescriptive names
Scroll to zoom (instead of scroll to pan)Hide secondary metabolitesShow gene reaction rulesHide reaction, gene, and metabolite labelsAllow duplicate reactionsHighlight reactions not in model
Tip: To increase map performance, turn off text boxes (i.e. labels and gene reaction rules).
Reactions
Reaction and gene data not loaded
Value:
Color:
Size:
Styles for reactions with no dataColor:
Size:
Reaction or Gene data
Options: Absolute valueSizeColorText (Show data in label)
Comparison: Fold ChangeLog2(Fold Change)Difference
Method for evaluating AND: MeanMin
Metabolites
Metabolite data not loaded
Value:
Color:
Size:
Styles for metabolites with no dataColor:
Size:
Metabolite data
Options: Absolute valueSizeColorText (Show data in label)
Comparison: Fold ChangeLog2(Fold Change)Difference
Drawing ...

Visualize reaction-centric and/or metabolite-centric data.



In [7]:

    
escher.Builder('e_coli_core.Core metabolism', reaction_data={'PGK': 100}, metabolite_data={'ATP': 20}).display_in_notebook()









    Out[7]:







  
  

  
  
    
  



  
Tip: Hover over an option to see more details about it.
View and build options
Identifiers: ID'sDescriptive names
Scroll to zoom (instead of scroll to pan)Hide secondary metabolitesShow gene reaction rulesHide reaction, gene, and metabolite labelsAllow duplicate reactionsHighlight reactions not in model
Tip: To increase map performance, turn off text boxes (i.e. labels and gene reaction rules).
Reactions
Reaction and gene data not loaded
Value:
Color:
Size:
Styles for reactions with no dataColor:
Size:
Reaction or Gene data
Options: Absolute valueSizeColorText (Show data in label)
Comparison: Fold ChangeLog2(Fold Change)Difference
Method for evaluating AND: MeanMin
Metabolites
Metabolite data not loaded
Value:
Color:
Size:
Styles for metabolites with no dataColor:
Size:
Metabolite data
Options: Absolute valueSizeColorText (Show data in label)
Comparison: Fold ChangeLog2(Fold Change)Difference
Drawing ...



In [ ]:

Options:	Absolute valueSizeColorText (Show data in label)
Comparison:	Fold ChangeLog2(Fold Change)Difference