[pymvpa] Group level searchlight

[Nick Oosterhof]

On 20 October 2017 at 21:28, Pegah Kassraian Fard <pegahkf at gmail.com> wrote:

> Many thanks, very useful indeed. A related question: So the input to the
> groupwise calculations are the permutated searchlight maps from single
> subjects - and computation-wise this seems to me to be quite a bottleneck,
> given that one whole brain searchlight already takes several hours. Is
> there any way to speed up this part?
>

You could use a faster classifier combined with the searchlight, in
particular a gaussian naive bayesian (GNB) classifier; see
http://www.pymvpa.org/generated/mvpa2.measures.gnbsearchlight.GNBSearchlight.html


For typical fMRI data GNB tends to be less accurate than linear SVM, in
other words there is a speed - accuracy trade-off.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.alioth.debian.org/pipermail/pkg-exppsy-pymvpa/attachments/20171021/b7bd6f64/attachment.html>