<commit_before>#
# Define basic display information
#
name     : Compare FBA solutions

tooltip  : |
    Compare the solutions from multiple FBA simulations

screenshots :

    - compare_fba_input.png
    - compare_fba_output1.png


#
# Define the set of other narrative methods that should be suggested to the user.
#
suggestions :
    apps:
        related :
            []
        next :
            []
    methods:
        related :
            []
        next :
            []


#
# Configure the display and description of the parameters
#
parameters :
    input_fbas :
        ui-name : |
            FBA(s)
        short-hint : |
            Select FBA solutions one at a time to compare one at a time; solutions must be created or copied into your narrative to be compared
        long-hint  : |
            Select FBA solutions one at a time to compare one at a time; solutions must be created or copied into your narrative to be compared

    output_fba_comparison :
        ui-name : |
            FBA comparison ID
        short-hint : |
            Name of the object where FBA comparison data will be stored in your narrative
        long-hint  : |
            Name of the object where FBA comparison data will be stored in your narrative


description : |

    <p>KBase permits the use of flux balance analysis to predict how an organism will behave metabolically in a wide range of growth conditions. With this capability, it quickly becomes important to be able to compare the flux profiles predicted by FBA side-by-side, so as to understand how an organism's behavior changes from one condition to the next, or how the behavior of two different organisms vary with in a single condition. This application permits this comparison. FBA solutions are compared on three levels: (i) the objective value for each FBA solution is compared; (ii) the flux through each reaction in each FBA solution is compared; and (iii) the uptake and excretion of metabolites in each FBA solution is compared. In this comparison, reaction fluxes are categorized into four possible states: not in model; no flux; forward flux; and reverse flux. Metabolite fluxes are categorized into similar states: note in model; no flux; uptake; and excretion. FBA solutions are compared based on these states, and solutions with similar states are compared based on magnitude of flux.</p>

    <p><strong>Team members who developed & deployed algorithm in KBase:</strong>
    <NAME>, <NAME>, <NAME>, <NAME>, <NAME>, <NAME>. For questions, <a href="mailto:<EMAIL>">e-mail <EMAIL></a></p>
<commit_msg>Update display.yaml<commit_after>#
# Define basic display information
#
name     : Compare FBA solutions

tooltip  : |
    Compare the solutions from multiple FBA simulations

screenshots :

    - compare_fba_input.png
    - compare_fba_output1.png


#
# Define the set of other narrative methods that should be suggested to the user.
#
suggestions :
    apps:
        related :
            []
        next :
            []
    methods:
        related :
            []
        next :
            []


#
# Configure the display and description of the parameters
#
parameters :
    input_fbas :
        ui-name : |
            FBA(s)
        short-hint : |
            Select FBA solutions one at a time to compare one at a time; solutions must be created or copied into your narrative to be compared
        long-hint  : |
            Select FBA solutions one at a time to compare one at a time; solutions must be created or copied into your narrative to be compared

    output_fba_comparison :
        ui-name : |
            FBA comparison ID
        short-hint : |
            Name of the object where FBA comparison data will be stored in your narrative
        long-hint  : |
            Name of the object where FBA comparison data will be stored in your narrative


description : |

    <p>KBase permits the use of flux balance analysis to predict how an organism will behave metabolically in a wide range of growth conditions. With this capability, it quickly becomes important to be able to compare the flux profiles predicted by FBA side-by-side, so as to understand how an organism's behavior changes from one condition to the next, or how the behavior of two different organisms vary with in a single condition. The Compare FBA Solutions method enables this comparison. FBA solutions are compared on three levels: (i) the objective value for each FBA solution is compared; (ii) the flux through each reaction in each FBA solution is compared; and (iii) the uptake and excretion of metabolites in each FBA solution is compared. In this comparison, reaction fluxes are categorized into four possible states: not in model; no flux; forward flux; and reverse flux. Metabolite fluxes are categorized into similar states: not in model; no flux; uptake; and excretion. FBA solutions are compared based on these states, and solutions with similar states are compared based on magnitude of flux.</p>

    <p><strong>Team members who developed & deployed algorithm in KBase:</strong>
    <NAME>, <NAME>, <NAME>, <NAME>, <NAME>, <NAME>. For questions, <a href="mailto:<EMAIL>">e-mail <EMAIL></a></p>

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