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Builds a weight matrix. Weight matrices are used for probabilistic recognition of transcription factor binding sites.

Element type: wmatrix-build


ParameterDescriptionDefault valueParameter in Workflow FileType
Matrix type (required)Dinucleic matrices are more detailed, while mononucleic one is more useful for small input data sets.Mononucleictype


Available values are:

  • true - for Dinucleic
  • false - for Mononucleic
Weight algorithmDifferent weight algorithms use different functions to build weight matrices. It allows us to get better precision on different data sets. Log-odds, NLG, and Match algorithms are sensitive to input matrices with zero values, so some of them may not work on those matrices.Berg and Von Hippelweight-algorithm


Available values are:

  • Berg and von Hippel
  • Log-odds
  • Match
  • NLG

Input/Output Ports

The element has 1 input port:

Name in GUI: Input alignment

Name in Workflow File: in-msa


Slot In GUISlot in Workflow FileType

And 1 output port:

Name in GUI: Weight matrix

Name in Workflow File: out-wmatrix


Slot In GUISlot in Workflow FileType
Weight matrixwmatrixwmatrix
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