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Builds a frequency matrix. Frequency matrices are used for probabilistic recognition of transcription factor binding sites.

Parameters in GUI

ParameterDescriptionDefault value
Matrix typeDinucleic matrices are more detailed, while mononucleic one are more useful for small input data sets.Mononucleic

Parameters in Workflowa File

Type: fmatrix-build

ParameterParameter in the GUIType
typeMatrix type

boolean

Available values are:

  • true - for Dinucleic
  • false - for Mononucleic

Input/Output Ports

The element has 1 input port:

Name in GUI: Input alignment

Name in Workflow File: in-msa

Slots:

Slot In GUISlot in Workflow FileType
MSAmsamsa

And 1 output port:

Name in GUI: Frequency matrix

Name in Workflow File: out-fmatrix

Slots:

Slot In GUISlot in Workflow FileType
Frequency matrixfmatrixfmatrix
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