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help > RE: Processing AP and PA subjects with multiple timepoints
Feb 5, 2021 03:02 PM | Jose Maximo
RE: Processing AP and PA subjects with multiple timepoints
Hi,
This is what my data looks like after using the BIDS import tool (see attached).
So, basically select 01_rest-AP-topup and 01_rest-PA-topup under conditions and go to conditions tools and select merge (union) of selected conditions and call it ses-01 for e.g.? Then, I can do the same with the rest of the conditions and call them ses-02, 03, etc.
After that, can I erase the previous conditions (01_rest-AP etc) and keep the ses-0's?
Thanks,
Omar
Originally posted by Alfonso Nieto-Castanon:
This is what my data looks like after using the BIDS import tool (see attached).
So, basically select 01_rest-AP-topup and 01_rest-PA-topup under conditions and go to conditions tools and select merge (union) of selected conditions and call it ses-01 for e.g.? Then, I can do the same with the rest of the conditions and call them ses-02, 03, etc.
After that, can I erase the previous conditions (01_rest-AP etc) and keep the ses-0's?
Thanks,
Omar
Originally posted by Alfonso Nieto-Castanon:
Hi Omar,
It is generally better not to concatenate the data before preprocessing or denoising, and to instead import all of your available data for each subject as different "sessions" into CONN and use the Setup.conditions tab to specify how you would want to combine those different sessions during the first-level analyses.
For example, if you are using the option "Project. New (import). from BIDS dataset" in the CONN's gui, that will import all of your subjects' data into a new project (with variable number of sessions per subject, depending on how much data each subject has). This procedure will also create some conditions automatically with some suggested combinations of your sessions into conditions (e.g. it may create two conditions, a "rest-AP" and a "rest-PA" condition, each combining the corresponding data across the available sessions for each subject, which, if you want, you can further combine using the menu 'condition tools. Merge (union) of selected conditions' in the Setup.Conditions tab)
Hope this helps
Alfonso
Originally posted by Jose Maximo:
It is generally better not to concatenate the data before preprocessing or denoising, and to instead import all of your available data for each subject as different "sessions" into CONN and use the Setup.conditions tab to specify how you would want to combine those different sessions during the first-level analyses.
For example, if you are using the option "Project. New (import). from BIDS dataset" in the CONN's gui, that will import all of your subjects' data into a new project (with variable number of sessions per subject, depending on how much data each subject has). This procedure will also create some conditions automatically with some suggested combinations of your sessions into conditions (e.g. it may create two conditions, a "rest-AP" and a "rest-PA" condition, each combining the corresponding data across the available sessions for each subject, which, if you want, you can further combine using the menu 'condition tools. Merge (union) of selected conditions' in the Setup.Conditions tab)
Hope this helps
Alfonso
Originally posted by Jose Maximo:
Hi,
I'm trying to set up my conn data, but the session/condition/scan nomenclature is throwing me off
I'm using 3 subjects as an example.
All subjects have an AP and PA scans (for field map correction. See attached pic) and want to insert them into CONN instead of concatenating them into one single resting state scan. Then, each subject has a different timepoint (ses-01, ses-02, ses-03, and ses-04), but NOT ALL subjects have ALL 4 timepoints (see attached pic).
How can I add AP and PA files into a single subject and then run preprocessing? or at this point, Im better off if I concatenate AP and PA into one single resting state scan and just use those for preprocessing.
Best,
Omar
I'm trying to set up my conn data, but the session/condition/scan nomenclature is throwing me off
I'm using 3 subjects as an example.
All subjects have an AP and PA scans (for field map correction. See attached pic) and want to insert them into CONN instead of concatenating them into one single resting state scan. Then, each subject has a different timepoint (ses-01, ses-02, ses-03, and ses-04), but NOT ALL subjects have ALL 4 timepoints (see attached pic).
How can I add AP and PA files into a single subject and then run preprocessing? or at this point, Im better off if I concatenate AP and PA into one single resting state scan and just use those for preprocessing.
Best,
Omar
Threaded View
| Title | Author | Date |
|---|---|---|
| Jose Maximo | Feb 4, 2021 | |
| Alfonso Nieto-Castanon | Feb 5, 2021 | |
| Jose Maximo | Feb 5, 2021 | |
| Alfonso Nieto-Castanon | Feb 5, 2021 | |