[Mne_analysis] TFCE parameters
Cushing, Cody
CCUSHING1 at mgh.harvard.edu
Mon Jul 18 12:52:04 EDT 2016
Aha! That's perfect. Thank you. I had actually been trying to figure it out from that very paper, I just had failed to make the connection between start/step and the integral. Thanks so much.
________________________________
From: mne_analysis-bounces at nmr.mgh.harvard.edu [mne_analysis-bounces at nmr.mgh.harvard.edu] on behalf of Natalie Klein [neklein at andrew.cmu.edu]
Sent: Monday, July 18, 2016 10:06 AM
To: Discussion and support forum for the users of MNE Software
Subject: Re: [Mne_analysis] TFCE parameters
Hi Cody, it might help to read this paper on TFCE:
Smith, S. M., & Nichols, T. E. (2009). Threshold-free cluster enhancement: Addressing problems of smoothing, threshold dependence and localisation in cluster inference. NeuroImage, 44(1), 83–98. http://doi.org/10.1016/j.neuroimage.2008.03.061
The definition of TFCE in equation (1) is an integral, with range "start" to the height at a given point; in software, this is simply approximated as a sum, so you choose the "start" (typically 0 makes sense) and then the step for how many discrete steps to choose to approximate the integral as a sum. I think the paper is very helpful for getting the intuition.
On Mon, Jul 18, 2016 at 10:02 AM, Cushing, Cody <CCUSHING1 at mgh.harvard.edu<mailto:CCUSHING1 at mgh.harvard.edu>> wrote:
Hi all,
My apologies if the documentation exists somewhere and I am just unable to find it, but what do the start/step parameters when using TFCE explicitly control? I couldn't find much in the manual or the archives.
Cheers,
Cody
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