help > Outliers + settings for figures visulizations
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Apr 15, 2022 01:04 PM | Samaneh Nemati - University of South Carolina
Outliers + settings for figures visulizations
Dear CONN developers/users,
Is there any way to know the number of outlier scans that were identified and removed for each subject? I have analyzed a resting-state dataset using CONN and the reviewer wants this information. I do not know how I can find this.
Also, when I create the results in the connectome ring format, it colors the non-significant regions in grey, however the labels are very difficult to see and I'd like to have labels readable and easily visible. Is there any way to change the settings for how to visualize figures? Or is there any way to save figure in an editable format (like svg) rather than jpg?
Any help and comment is appreciated!
Samaneh
Is there any way to know the number of outlier scans that were identified and removed for each subject? I have analyzed a resting-state dataset using CONN and the reviewer wants this information. I do not know how I can find this.
Also, when I create the results in the connectome ring format, it colors the non-significant regions in grey, however the labels are very difficult to see and I'd like to have labels readable and easily visible. Is there any way to change the settings for how to visualize figures? Or is there any way to save figure in an editable format (like svg) rather than jpg?
Any help and comment is appreciated!
Samaneh
Apr 20, 2022 10:04 PM | Alfonso Nieto-Castanon - Boston University
RE: Outliers + settings for figures visulizations
Dear Samaneh,
The number of outlier timepoints for each subjects is stored in the 2nd-level covariate named QC_InvalidScans (in Setup.Covariates 2nd-level)
And regarding saving images in SVG format, when printing the image to a file you may change the option in the GUI that reads:
-djpeg90 -r600 -opengl
to:
-dsvg
in order to select an output SVG file format (see "doc print" for other formats/options)
Best
Alfonso
Originally posted by Samaneh Nemati:
The number of outlier timepoints for each subjects is stored in the 2nd-level covariate named QC_InvalidScans (in Setup.Covariates 2nd-level)
And regarding saving images in SVG format, when printing the image to a file you may change the option in the GUI that reads:
-djpeg90 -r600 -opengl
to:
-dsvg
in order to select an output SVG file format (see "doc print" for other formats/options)
Best
Alfonso
Originally posted by Samaneh Nemati:
Dear CONN developers/users,
Is there any way to know the number of outlier scans that were identified and removed for each subject? I have analyzed a resting-state dataset using CONN and the reviewer wants this information. I do not know how I can find this.
Also, when I create the results in the connectome ring format, it colors the non-significant regions in grey, however the labels are very difficult to see and I'd like to have labels readable and easily visible. Is there any way to change the settings for how to visualize figures? Or is there any way to save figure in an editable format (like svg) rather than jpg?
Any help and comment is appreciated!
Samaneh
Is there any way to know the number of outlier scans that were identified and removed for each subject? I have analyzed a resting-state dataset using CONN and the reviewer wants this information. I do not know how I can find this.
Also, when I create the results in the connectome ring format, it colors the non-significant regions in grey, however the labels are very difficult to see and I'd like to have labels readable and easily visible. Is there any way to change the settings for how to visualize figures? Or is there any way to save figure in an editable format (like svg) rather than jpg?
Any help and comment is appreciated!
Samaneh
May 4, 2022 01:05 AM | Samaneh Nemati - University of South Carolina
RE: Outliers + settings for figures visulizations
Thank you so much for your response, Alfonso.
I have one more question regarding the connectome ring figure. When I create the ring, it makes significant ROIs labels bold and visible but non-significant regions are invisible. I like that it makes non-significant ROI labels gray, but I need them to be visible and readable. Is there any way to change this setting? Could you let me know which script is used to create this figure? I might be able to change the code a little bit. I'd really appreciate your response.
I have one more question regarding the connectome ring figure. When I create the ring, it makes significant ROIs labels bold and visible but non-significant regions are invisible. I like that it makes non-significant ROI labels gray, but I need them to be visible and readable. Is there any way to change this setting? Could you let me know which script is used to create this figure? I might be able to change the code a little bit. I'd really appreciate your response.