Aligns multiple sequence alignments (MSAs) supplied with ClustalO.
Parameters in GUI
| Parameter | Description | Default value |
|---|---|---|
| Number of iterations | Number of (combined guide-tree/HMM) iterations. | 1 |
| Number of guidetree iterations | Maximum number guidetree iterations. | 0 |
| Number of HMM iterations | Maximum number of HMM iterations. | 0 |
| Set auto options | Set options automatically (might overwrite some of your options). | False |
| Tool path | Path to the ClustalO tool. The default path can be set in the UGENE application settings. | Default |
| Temporary directory | Directory to store temporary files. | Default |
Parameters in Workflow File
Type: ClustalO
| Parameter | Parameter in the GUI | Type |
|---|---|---|
| num-iterations | Number of iterations | numeric |
| max-guidetree-iterations | Number of guidetree iterations | numeric |
| max-hmm-iterations | Number of HMM iterations | numeric |
| set-auto | Set auto options | boolean |
| path | Tool path | string |
| temp-dir | Temporary directory | string |
Input/Output Ports
The element has 1 input port:
Name in GUI: Input MSA
Name in Workflow File: in-msa
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| MSA | msa | malignment |
And 1 output port:
Name in GUI: ClustalO result MSA
Name in Workflow File: out-msa
Slots:
| Slot In GUI | Slot in Workflow File | Type |
|---|---|---|
| MSA | msa | malignment |