plugin_ica_cli.md

+# Using the plugin from the command line   
+The plugin can use the following options:   
+
+| option | type | description/value |   
+| :---    | :---:  | :---:   |   
+| --run ica|  **MANDATORY** | name of the plugin |
+| --modality value | **MANDATORY** | value must be: MEG SEEG EEG EMG |    
+| --comp value | optional   | value is the number of components to compute. Default is number of channels |
+| --algorithm name | optional   | infomax cca sobi : default is infomax |
+| --use_seeg_electrode  electrode |  optional   | compute ICA only on electrode |
+| --save_comp_traces | optional | a switch to get also a .vhdr file containing the components time series |
+
+
+This plugin also uses the following common options:   
+
+| option |  type |
+| :---    | :---: |
+| --input_file |  **MANDATORY** |
+| --hp | optional |
+| --lp | optional |
+| --use_markers | optional |
+| --skip_markers | optional |
+| --output_dir | optional |
+| --output_suffix | optional |
+| --output_prefix | optional |
+| --marker_file | optional |
+
+**NOTE:** the --montage_file option is ignored. The plugin ALWAYS uses the as recorded channels from the data file.   
+
+# command line examples
+Compute on MEG using default infomax algorithm.    
+80 components requested, signal filtered (1-70)   
+```bash
+anywave --run ica --input_file d:\data\1\cf,rDC --modality MEG --comp 80 --hp 1 --lp 70 
+```
+Compute using sobi algorithm avoiding artefacts:   
+```bash
+anywave --run ica --input_file d:\data\1\cf,rDC --algorithm sobi --modality MEG  --hp 1 --lp 70 --skip_markers "artefact"
+```
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