[Mne_analysis] Repeated-measured oneway ANOVA / paired ttest in spatio temporal clustering

[Laetitia Grabot]

Ok so I understood that paired ttest = ttest of the paired contrast. Yet I
didn't see why a paired ttest is the same thing as a 2 factors repeated
measures anova. I would understand the equivalence between a paired ttest
and a one way repeated measures anova, but why 2 factors? I also don't
understand the squared output...
And I have only one factor "Condition" with two levels "condition 1" and
"condition 2".

2014-10-27 15:20 GMT+01:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

> Hi Laetitia,
>
> how may 'factors' / conditions do you have?
> A t-test for related samples is equivalent to a 1 smaple t-test of the
> paired contrast which is the same as a repeated measures ANOVA for 2
> factors after squaring the output:
>
> def stat_fun(x):
>     return mne.stats.ttest_1samp_no_p(x, sigma=1e-3, method='relative') **
> 2
>
> Also see this modified example that showd how to compute an interaction
> contrast using this stat_fun.
>
> https://gist.github.com/dengemann/ff96e48dd1dd3eeaca3e
>
> HTH,
> Denis
>
>
>
>
> 2014-10-27 15:03 GMT+01:00 Laetitia Grabot <laetitia.grabot at gmail.com>:
>
>> Dear mailing list,
>>
>> I'm doing spatio-temporal clustering on 12 subjects in source space. Very
>> basically, I would like to compare two conditions by taking into account
>> subjects variability, so I need to do a paired ttest/oneway
>> repeated-measure ANOVA. Yet, the spatio_temporal_cluster_test function
>> is only implementing  oneway anova, while the spatio_temporal_cluster_1samp_test
>> is implementing simple ttest on the difference
>> *.*
>> *I looked at related issues on github and found that there is a twoway
>> anova with repeated measures function implemented under the name of
>> f_twoway_rm but it doesn't work for oneway anova (factor_levels = [2],
>> n_conditions = 2). Then I tried to build a stat_fun function from *
>>
>> *scipy.stats.ttest_rel:*
>>
>> *def stat_fun(*args):*
>>
>> *      a = X[0]*
>> *      b = X[1]**      return *
>> *scipy.stats.ttest_rel(a,b)*
>>
>> *But I get an error at lign 708 in _permutation_cluster_test (cannot copy
>> sequence with size 2 to array axis with dimension 0), I guessed there is a
>> format problem in my stat_fun function...*
>>
>>
>> *Did someone find a way to do such an analysis?*
>>
>>
>> *Thanks in advance,Laetitia Grabot.*
>>
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