Difference between revisions of "AnyWave:CLI H2"
From WikiMEG
(→Arguments description for plugin H2) |
(→Examples) |
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<syntaxhighlight lang='bash'> | <syntaxhighlight lang='bash'> | ||
anywave --run h2 --input_file d:\data\seeg\data.eeg --algorithm r2 --time_window 4 --step 0.5 --max_lag 0.1 --hp 1 --lp 100 | anywave --run h2 --input_file d:\data\seeg\data.eeg --algorithm r2 --time_window 4 --step 0.5 --max_lag 0.1 --hp 1 --lp 100 | ||
| + | </syntaxhighlight> | ||
| + | =using json file= | ||
| + | Sometimes it make sense to group the settings for a plugin on a json file for further reuse in a batch loop.<br/> | ||
| + | JSON file also offers the capability to specify more than on value for some arguments like skip_markers, use markers.<br/> | ||
| + | Example of processing while skipping several artifacts parts of the data file:<br/> | ||
| + | json param.json:<br/> | ||
| + | <syntaxhighlight lang='java'> | ||
| + | { | ||
| + | "plugin" : "h2", | ||
| + | "time_window" : 4, | ||
| + | "step" : 0.5, | ||
| + | "max_lag" : 0.1, | ||
| + | "skip_markers" : ["artefacts", "bad", "rejected"] | ||
| + | } | ||
| + | </syntaxhighlight> | ||
| + | Then the command:<br/> | ||
| + | <syntaxhighlight lang='bash'> | ||
| + | anywave --run param.json --input_file d:\data\seeg\data.eeg --hp 1 --lp 100 | ||
</syntaxhighlight> | </syntaxhighlight> | ||
Revision as of 16:35, 14 April 2020
Arguments description for plugin H2
plugin name: h2
| argument | requirement | description |
|---|---|---|
| input_file <file> | MANDATORY | common argument |
| time_window <value> | MANDATORY | time window in seconds. |
| step <value> | MANDATORY | step in seconds. |
| max_lag <value> | MANDATORY | maximum lag in seconds. |
| hp <value> | OPTIONAL | common hp argument. |
| lp <value> | OPTIONAL | common lp argument. |
| algorithm <r2,h2> | OPTIONAL | algorithm method to compute correlation. Default is h2. |
| downsampling_factor <value> | OPTIONAL | Downsampling data before computing by factor. ie. if sampling rate is 1024Hz, a factor of 4 will downsample to 256Hz. Default is 1 (no downsampling) |
| skip_markers <marker name> | OPTIONAL | common argument. ICA will skip all the data sections marked by the specified marker. |
| use_markers <marker name> | OPTIONAL | common argument. ICA will only compute on data sections marked by the specified marker. |
| output_dir <dir> | OPTIONAL | common argument. The result file will be placed in the specified directory path. |
| output_prefix <string> | OPTIONAL | common argument. The result file will be prefixed using the specified string. |
Examples
run h2 on seeg data, using 1-100Hz band.
anywave --run h2 --input_file d:\data\seeg\data.eeg --time_window 4 --step 0.5 --max_lag 0.1 --hp 1 --lp 100
run with r2 method:
anywave --run h2 --input_file d:\data\seeg\data.eeg --algorithm r2 --time_window 4 --step 0.5 --max_lag 0.1 --hp 1 --lp 100
using json file
Sometimes it make sense to group the settings for a plugin on a json file for further reuse in a batch loop.
JSON file also offers the capability to specify more than on value for some arguments like skip_markers, use markers.
Example of processing while skipping several artifacts parts of the data file:
json param.json:
{ "plugin" : "h2", "time_window" : 4, "step" : 0.5, "max_lag" : 0.1, "skip_markers" : ["artefacts", "bad", "rejected"] }
Then the command:
anywave --run param.json --input_file d:\data\seeg\data.eeg --hp 1 --lp 100
