impact.core.features module¶

class impact.core.features.BaseAnalyteFeature¶

Bases: object

Base multi analyte feature. Use this to create new features. A feature is anything calcaulted from multiple analytes

Attributes

data

data¶

class impact.core.features.BaseAnalyteFeatureFactory¶

Bases: object

Attributes

name
requires

Methods

add_analyte_data(analyte_data)

Function called when new analyte is added.

add_analyte_data(analyte_data)¶

Function called when new analyte is added. If an analyte is required for this feature, ensure to save or use analyte. Do not manipulate raw analyte data. Parameters ———- analyte_data

name = None¶

requires = None¶

class impact.core.features.COBRAModelFactory¶

Bases: impact.core.features.BaseAnalyteFeature

Attributes

data

Methods

calculate()

calculate()¶

class impact.core.features.MassBalance(substrate, product=None, biomass=None)¶

Bases: impact.core.features.BaseAnalyteFeature

Attributes

data

Methods

calculate()
calculate_substrate_consumed()

calculate()¶

calculate_substrate_consumed()¶

data¶

class impact.core.features.MassBalanceFactory¶

Bases: object

class impact.core.features.NormalizedData(analyte, normalization_analyte)¶

Bases: impact.core.features.BaseAnalyteFeature

Normalizes a given analyte to another

Attributes

data

data¶

class impact.core.features.NormalizedDataFactory¶

Bases: impact.core.features.BaseAnalyteFeatureFactory

Methods

add_analyte_data(analyte)

Function called when new analyte is added.

add_analyte_data(analyte)¶

Function called when new analyte is added. If an analyte is required for this feature, ensure to save or use analyte. Do not manipulate raw analyte data. Parameters ———- analyte_data

name = 'normalized_data'¶

requires = ['product', 'substrate', 'biomass']¶

class impact.core.features.ODNormalizedData(biomass, reporter)¶

Bases: impact.core.features.BaseAnalyteFeature

Attributes

data

Methods

calculate()

calculate()¶

data¶

class impact.core.features.ODNormalizedDataFactory¶

Bases: impact.core.features.BaseAnalyteFeatureFactory

Methods

add_analyte_data(analyte_data)

Function called when new analyte is added.

add_analyte_data(analyte_data)¶

Function called when new analyte is added. If an analyte is required for this feature, ensure to save or use analyte. Do not manipulate raw analyte data. Parameters ———- analyte_data

name = 'od_normalized_data'¶

requires = ['biomass', 'reporter']¶

class impact.core.features.ProductYield(substrate, product)¶

Bases: impact.core.features.BaseAnalyteFeature

Attributes

data

Methods

calculate()
calculate_substrate_consumed()

calculate()¶

calculate_substrate_consumed()¶

data¶

class impact.core.features.ProductYieldFactory¶

Bases: impact.core.features.BaseAnalyteFeatureFactory

Methods

add_analyte_data(analyte_data)

Function called when new analyte is added.

add_analyte_data(analyte_data)¶

Function called when new analyte is added. If an analyte is required for this feature, ensure to save or use analyte. Do not manipulate raw analyte data. Parameters ———- analyte_data

name = 'product_yield'¶

requires = ['substrate', 'product', 'biomass']¶

class impact.core.features.SpecificProductivity(biomass, analyte)¶

Bases: impact.core.features.BaseAnalyteFeature

Attributes

data

Methods

calculate()

Calculate the specific productivity (dP/dt) given \(dP/dt = k_{Product} * X\)

calculate()¶

Calculate the specific productivity (dP/dt) given \(dP/dt = k_{Product} * X\)

data¶

class impact.core.features.SpecificProductivityFactory¶

Bases: object

Methods

add_analyte_data(analyte_data)

add_analyte_data(analyte_data)¶

name = 'specific_productivity'¶

requires = ['substrate', 'product', 'biomass']¶