External Email - Use Caution
Hi there,
Is there a standard method to use for adjusting for between scanner variance? In the sample I am analyzing, 4 different scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edumailto:hlindroth@wisc.edu
Hi Heidi what kind of study are you doing? Usually scanner is included as a nuisance regressor, but you also want to make sure that you balance your subject population across scanner as much as you can
cheers Bruce
On Tue, 26 Jun 2018, Heidi Lindroth wrote:
External Email - Use Caution
Hi there, Is there a standard method to use for adjusting for between scanner variance? In the sample I am analyzing, 4 different scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
External Email - Use Caution
Hi Bruce,
It is a cross-sectional, descriptive analysis. The data has already been collected. The participants are not evenly distributed. Would it be appropriate to regress out scanner type if I am using the raw data (extracted via DKT atlas)?
thank you,
Heidi Lindroth BSN RN PhD Candidate| School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu Sent: Tuesday, June 26, 2018 12:27:35 PM To: Freesurfer support list Subject: Re: [Freesurfer] Adjusting/accounting for between scanner variance
Hi Heidi what kind of study are you doing? Usually scanner is included as a nuisance regressor, but you also want to make sure that you balance your subject population across scanner as much as you can
cheers Bruce
On Tue, 26 Jun 2018, Heidi Lindroth wrote:
External Email - Use CautionHi there, Is there a standard method to use for adjusting for between scanner variance? In the sample I am analyzing, 4 different scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
That is what it means to add scanner as a nuisance variable. How unbalanced is the design?
On 06/26/2018 01:30 PM, Heidi Lindroth wrote:
Hi Bruce,
It is a cross-sectional, descriptive analysis. The data has already been collected. The participants are not evenly distributed. Would it be appropriate to regress out scanner type if I am using the raw data (extracted via DKT atlas)?
thank you,
Heidi Lindroth BSN RN PhD Candidate| School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu *Sent:* Tuesday, June 26, 2018 12:27:35 PM *To:* Freesurfer support list *Subject:* Re: [Freesurfer] Adjusting/accounting for between scanner variance Hi Heidi what kind of study are you doing? Usually scanner is included as a nuisance regressor, but you also want to make sure that you balance your subject population across scanner as much as you can
cheers Bruce
On Tue, 26 Jun 2018, Heidi Lindroth wrote:
External Email - Use Caution
Hi there, Is there a standard method to use for adjusting for between scanner
variance? In the sample I am analyzing, 4 different
scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department
of Anesthesiology
Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
1st scanner - 34
2nd scanner-1
3rd scanner-4
4th scanner-15
Heidi Lindroth BSN RN PhD Candidate| School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N. Greve dgreve@mgh.harvard.edu Sent: Tuesday, June 26, 2018 12:48:39 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Adjusting/accounting for between scanner variance
That is what it means to add scanner as a nuisance variable. How unbalanced is the design?
On 06/26/2018 01:30 PM, Heidi Lindroth wrote:
Hi Bruce,
It is a cross-sectional, descriptive analysis. The data has already been collected. The participants are not evenly distributed. Would it be appropriate to regress out scanner type if I am using the raw data (extracted via DKT atlas)?
thank you,
Heidi Lindroth BSN RN PhD Candidate| School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bruce Fischl fischl@nmr.mgh.harvard.edu *Sent:* Tuesday, June 26, 2018 12:27:35 PM *To:* Freesurfer support list *Subject:* Re: [Freesurfer] Adjusting/accounting for between scanner variance Hi Heidi what kind of study are you doing? Usually scanner is included as a nuisance regressor, but you also want to make sure that you balance your subject population across scanner as much as you can
cheers Bruce
On Tue, 26 Jun 2018, Heidi Lindroth wrote:
External Email - Use CautionHi there, Is there a standard method to use for adjusting for between scanner
variance? In the sample I am analyzing, 4 different
scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department
of Anesthesiology
Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
External Email - Use Caution
https://github.com/Jfortin1/ComBatHarmonization -joost
Op di 26 jun. 2018 18:50 schreef Heidi Lindroth hlindroth@wisc.edu:
External Email - Use CautionHi there,
Is there a standard method to use for adjusting for between scanner variance? In the sample I am analyzing, 4 different scanners were used.
Thank you,
Heidi Lindroth BSN RN PhD Candidate | School of Nursing Program Assistant | School of Medicine and Public Health, Department of Anesthesiology Predoctoral Fellow | Veterans Administration (Madison WI)
University of Wisconsin-Madison 701 Highland Avenue, Madison WI 53705 608-219-4294 | hlindroth@wisc.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
freesurfer@nmr.mgh.harvard.edu
-
Bruce Fischl -
Douglas N. Greve -
Heidi Lindroth -
Joost Janssen