Convert Frequency Matrix Element
Converts a frequency matrix to a weight matrix. Weight matrices are used for the probabilistic recognition of transcription factor binding sites.
Element type: fmatrix-to-wmatrix
Parameters
| Parameter | Description | Default Value | Parameter in Workflow File | Type |
|---|---|---|---|---|
| Matrix type | Dinucleic matrices are more detailed, while mononucleic are more useful for small datasets. (Required) | Mononucleic | type | boolean |
| Available values: • true – Dinucleic• false – Mononucleic | ||||
| Weight algorithm | Weighting function to convert the frequency matrix. Some are sensitive to zero values in input. | Berg and Von Hippel | weight-algorithm | string |
| Available values: • Berg and von Hippel• Log-odds• Match• NLG |
Input/Output Ports
| Port Name (GUI) | Workflow File Name | Slots |
|---|---|---|
| Frequency matrix | in-fmatrix | Frequency matrix → fmatrix (fmatrix) |
| Weight matrix | out-wmatrix | Weight matrix → wmatrix (wmatrix) |