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help > RE: CONN toolbox denoising step in preprocessing
Apr 13, 2023 12:04 AM | Alfonso Nieto-Castanon - Boston University
RE: CONN toolbox denoising step in preprocessing
Hi Lei,
The command looks perfectly fine, CONN is keeping the status of your data after preprocessing as a temporal in-memory CONN project (e.g. to allow you to visualize the results of those preprocessing steps using the CONN gui, or perform additional preprocessing steps on the resulting data without having to re-specify the new functional files) but it is not writing/storing that CONN project anywhere so you should be able to simply disregard that functionality.
Hope this helps
Alfonso
Originally posted by Lei Cao:
The command looks perfectly fine, CONN is keeping the status of your data after preprocessing as a temporal in-memory CONN project (e.g. to allow you to visualize the results of those preprocessing steps using the CONN gui, or perform additional preprocessing steps on the resulting data without having to re-specify the new functional files) but it is not writing/storing that CONN project anywhere so you should be able to simply disregard that functionality.
Hope this helps
Alfonso
Originally posted by Lei Cao:
Hi CONN experts,
I was trying to use CONN toolbox to denoise my data. And here is the code I use:
conn_module('preprocessing',...
'functionals', {funcdata}, ...
'covariates', struct(...
'names', {{'nuisance'}},...
'files', {{nuisance}}),...
'steps', {'functional_regression'}, ...
'reg_names', {'nuisance'}, ...
'reg_dimensions',[inf], ...
'reg_deriv', [0], ...
'reg_detrend', [1])
And in the standard output I get:
CONN: RUNNING SETUP.PREPROCESSING STEP
Preparing functional Regression of temporal components (keep residuals of linear model to BOLD timeseries). Please wait...
regression of temporal component (nuisance )
dimensions = Inf; derivatives = 0; filtered = []; lags(0-8s) = []; skip = 0; detrend = 1
Performing functional Regression of temporal components (keep residuals of linear model to BOLD timeseries). Please wait...
Done functional Regression of temporal components (keep residuals of linear model to BOLD timeseries)
Importing results to CONN project. Please wait...
Done
ans =
[]
Is there a way to avoid it writing to a CONN project which I do not have in this case?
Thanks a lot for your help,
Lei
I was trying to use CONN toolbox to denoise my data. And here is the code I use:
conn_module('preprocessing',...
'functionals', {funcdata}, ...
'covariates', struct(...
'names', {{'nuisance'}},...
'files', {{nuisance}}),...
'steps', {'functional_regression'}, ...
'reg_names', {'nuisance'}, ...
'reg_dimensions',[inf], ...
'reg_deriv', [0], ...
'reg_detrend', [1])
And in the standard output I get:
CONN: RUNNING SETUP.PREPROCESSING STEP
Preparing functional Regression of temporal components (keep residuals of linear model to BOLD timeseries). Please wait...
regression of temporal component (nuisance )
dimensions = Inf; derivatives = 0; filtered = []; lags(0-8s) = []; skip = 0; detrend = 1
Performing functional Regression of temporal components (keep residuals of linear model to BOLD timeseries). Please wait...
Done functional Regression of temporal components (keep residuals of linear model to BOLD timeseries)
Importing results to CONN project. Please wait...
Done
ans =
[]
Is there a way to avoid it writing to a CONN project which I do not have in this case?
Thanks a lot for your help,
Lei
Threaded View
| Title | Author | Date |
|---|---|---|
| Lei Cao | Apr 8, 2023 | |
| Alfonso Nieto-Castanon | Apr 13, 2023 | |