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Where can I find ICA aroma regressor outputs? ICA AROMA regressors are not in the confounds file where the aCompCor components and motion parameters are.
Example of an output confound file: https://duke.box.com/s/1rn9jys7d71roviw2knnb5m8pr4rjkgr
I ran atlas connectivity with ICA and aCompCorr, and also no regressors, and we wanted to compare.
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Where can I find ICA aroma regressor outputs? ICA AROMA regressors are not in the confounds file where the aCompCor components and motion parameters are.
Example of an output confound file: https://duke.box.com/s/1rn9jys7d71roviw2knnb5m8pr4rjkgr
I ran atlas connectivity with ICA and aCompCorr, and also no regressors, and we wanted to compare.
spec file:
{
"halfpipe_version": "1.2.2.post1.dev398+g7e67e09",
"schema_version": "3.0",
"timestamp": "2023-08-07_10-32",
"global_settings": {
"dummy_scans": 4,
"slice_timing": false,
"use_bbr": null,
"skull_strip_algorithm": "ants",
"run_mriqc": false,
"run_fmriprep": true,
"run_halfpipe": true,
"fd_thres": 0.5,
"anat_only": false,
"write_graph": false,
"hires": false,
"run_reconall": false,
"t2s_coreg": false,
"medial_surface_nan": false,
"bold2t1w_dof": 9,
"fmap_bspline": true,
"force_syn": false,
"longitudinal": false,
"regressors_all_comps": false,
"regressors_dvars_th": 1.5,
"regressors_fd_th": 0.5,
"skull_strip_fixed_seed": false,
"skull_strip_template": "OASIS30ANTs",
"aroma_err_on_warn": false,
"aroma_melodic_dim": -200,
"sloppy": false
},
"files": [
{
"datatype": "anat",
"tags": {},
"extension": ".nii",
"path": "/ext/tmp/isilon/morey/lab/morey_biac/newLeiden/anat/{sub}.nii",
"suffix": "T1w"
},
{
"datatype": "func",
"tags": {
"task": "rest"
},
"metadata": {},
"extension": ".nii",
"path": "/ext/tmp/isilon/morey/lab/morey_biac/newLeiden/func/{sub}.nii",
"suffix": "bold"
},
{
"datatype": "ref",
"tags": {},
"metadata": {},
"extension": ".nii.gz",
"path": "/ext/tmp/isilon/morey/lab/morey_biac/atlases/tpl-MNI152NLin2009cAsym_atlas-{desc}_dseg.nii.gz",
"suffix": "atlas"
}
],
"settings": [
{
"ica_aroma": true,
"grand_mean_scaling": {
"mean": 10000.0
},
"bandpass_filter": {
"hp_width": 125.0,
"lp_width": null,
"type": "gaussian"
},
"name": "corrMatrixSetting",
"output_image": false
},
{
"ica_aroma": true,
"grand_mean_scaling": {
"mean": 10000.0
},
"bandpass_filter": {
"hp_width": 125.0,
"lp_width": 0.0,
"type": "gaussian"
},
"confounds_removal": [
"a_comp_cor_0[0-4]"
],
"name": "corrMatrix1Setting",
"output_image": false
},
{
"ica_aroma": false,
"grand_mean_scaling": {
"mean": 10000.0
},
"bandpass_filter": {
"hp_width": 125.0,
"lp_width": 0.0,
"type": "gaussian"
},
"confounds_removal": [
"a_comp_cor_0[0-4]"
],
"name": "corrMatrix2Setting",
"output_image": false
},
{
"ica_aroma": false,
"grand_mean_scaling": {
"mean": 10000.0
},
"bandpass_filter": {
"hp_width": 125.0,
"lp_width": 0.0,
"type": "gaussian"
},
"name": "corrMatrix3Setting",
"output_image": false
}
],
"features": [
{
"setting": "corrMatrixSetting",
"atlases": [
"freeSurfer",
"brainnetomeCombined",
"brainnetome",
"power2011",
"schaefer2011Combined"
],
"name": "corrMatrix",
"min_region_coverage": 0.8,
"type": "atlas_based_connectivity"
},
{
"setting": "corrMatrix1Setting",
"atlases": [
"freeSurfer",
"brainnetomeCombined",
"brainnetome",
"power2011",
"schaefer2011Combined"
],
"name": "corrMatrix1",
"min_region_coverage": 0.8,
"type": "atlas_based_connectivity"
},
{
"setting": "corrMatrix2Setting",
"atlases": [
"freeSurfer",
"brainnetomeCombined",
"brainnetome",
"power2011",
"schaefer2011Combined"
],
"name": "corrMatrix2",
"min_region_coverage": 0.8,
"type": "atlas_based_connectivity"
},
{
"setting": "corrMatrix3Setting",
"atlases": [
"freeSurfer",
"brainnetomeCombined",
"brainnetome",
"power2011",
"schaefer2011Combined"
],
"name": "corrMatrix3",
"min_region_coverage": 0.8,
"type": "atlas_based_connectivity"
}
],
"models": []
}
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