3.1.1.5.1.1. etfl.integration.transcriptomics

3.1.1.5.1.1.1. Module Contents

3.1.1.5.1.1.1.1. Classes

RelativeTranscriptomicsLB

Represents a lower bound on mRNA ratio in relative transcriptomics

RelativeTranscriptomicsUB

Represents an upper bound on mRNA ratio in relative transcriptomics

ReferenceLevel

Represents the reference level for relative transcriptomics

3.1.1.5.1.1.1.2. Functions

integrate_relative_transcriptomics(model, lower_bounds, upper_bounds, base=2)

Integrates log-ratio expression data to mRNA levels in ETFL
class etfl.integration.transcriptomics.RelativeTranscriptomicsLB[source]

Bases: etfl.optim.constraints.GeneConstraint

Represents a lower bound on mRNA ratio in relative transcriptomics

prefix = RTL_[source]
class etfl.integration.transcriptomics.RelativeTranscriptomicsUB[source]

Bases: etfl.optim.constraints.GeneConstraint

Represents an upper bound on mRNA ratio in relative transcriptomics

prefix = RTU_[source]
class etfl.integration.transcriptomics.ReferenceLevel[source]

Bases: etfl.optim.variables.ModelVariable

Represents the reference level for relative transcriptomics

prefix = RL_[source]
etfl.integration.transcriptomics.integrate_relative_transcriptomics(model, lower_bounds, upper_bounds, base=2)[source]

Integrates log-ratio expression data to mRNA levels in ETFL

Parameters

  • model (etfl.core.memodel.MEModel) – an ETFL model

  • lower_bounds (dict or pandas.Series) –

  • upper_bounds (dict or pandas.Series) –

Returns