<html>
<head>
<meta content="text/html; charset=utf-8" http-equiv="Content-Type">
</head>
<body text="#000000" bgcolor="#FFFFFF">
<p>Hello all,</p>
<p>at least for the pop_newtimef function I was able to confirm
that, yes, the content of the p-value threshold field is fed into
the fdr as alpha value. I feel confident that this is consistently
done for STUDY plots using FDR.</p>
<p>Actually, when you use pop_newtimef with FDR it outputs something
like "ERSP correction for multiple comparisons using FDR,
alpha_fdr = 0.024876" which I I find a little misleading. Because
the number printed is actually the return value of the fdr
function, namely the p-value threshold.<br>
</p>
<p>Regardless, thanks for the support</p>
<p>Best Nils<br>
</p>
<br>
<div class="moz-cite-prefix">Am 26.01.2017 um 23:00 schrieb Makoto
Miyakoshi:<br>
</div>
<blockquote
cite="mid:18638_1485468066_v0QM13O8028714_CAEqC+SXVgdoa9JhKVPkYDqUEN-U3PWn3eJ3LwkHGznL0LuR0DA@mail.gmail.com"
type="cite">
<div dir="ltr">Dear Nils,
<div><br>
</div>
<div>I pasted the results from 'help fdr'. Apparently, it takes
only two inputs, p-values and alpha. So if you use any value
other than p-values, that should be alpha.</div>
<div><br>
</div>
<div>Makoto</div>
<div><br>
</div>
<div>%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%</div>
<div>
<div>>> help fdr</div>
<div> fdr() - compute false detection rate mask</div>
<div> </div>
<div> Usage:</div>
<div> >> [p_fdr, p_masked] = fdr( pvals, alpha);</div>
<div> </div>
<div> Inputs:</div>
<div> pvals - vector or array of p-values</div>
<div> alpha - threshold value (non-corrected). If no
alpha is given</div>
<div> each p-value is used as its own alpha and
fdr corrected</div>
<div> array is returned.</div>
<div> fdrtype - ['parametric'|'nonParametric'] fdr type.
Default is </div>
<div> 'parametric'.</div>
<div> </div>
<div> Outputs:</div>
<div> p_fdr - pvalue used for threshold (based on
independence</div>
<div> or positive dependence of measurements)</div>
<div> p_masked - p-value thresholded. Same size as pvals.</div>
<div> </div>
<div> Author: Arnaud Delorme, SCCN, 2008-</div>
<div> Based on a function by Tom Nichols</div>
<div> </div>
<div> Reference: Bejamini & Yekutieli (2001) The Annals
of Statistics</div>
</div>
<div>%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On Wed, Jan 25, 2017 at 12:55 AM, Nils
Hachmeister <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:nils.hachmeister@uni-bielefeld.de"
target="_blank">nils.hachmeister@uni-bielefeld.de</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">Hi
everyone,<br>
<br>
I'm using the study structure and aim to generate different
plots including statistical testing (non-parametric) with
multiple comparison correction, namely FDR. I used FDR
before (in a context unrelated to eeglab) and it is my
understanding that you pass a parameter alpha to it. FDR
returns a (common) threshold for p-values which guarantees
that the expected rate of type-I errors among all rejections
of the 0-hypothesis is smaller or equal to alpha.<br>
<br>
Now, in the statistics menu in the eeglab gui and the
documentation at <a moz-do-not-send="true"
href="https://sccn.ucsd.edu/wiki/Chapter_06:_Study_Statistics_and_Visualization_Options"
rel="noreferrer" target="_blank">https://sccn.ucsd.edu/wiki/Cha<wbr>pter_06:_Study_Statistics_and_<wbr>Visualization_Options</a>
I cannot really find that notion. There is no mention of a
parameter nor any constraints regarding the rate of type-I
errors. However, I noticed that when passing a value to the
edit-field labeled threshold the results change pretty much
in a way consistent with that field being used as FDR-alpha.
But from the documentation I cannot confirm this assumption.
Can anybody here confirm this?<br>
<br>
Best<br>
<br>
Nils<br>
<br>
______________________________<wbr>_________________<br>
Eeglablist page: <a moz-do-not-send="true"
href="http://sccn.ucsd.edu/eeglab/eeglabmail.html"
rel="noreferrer" target="_blank">http://sccn.ucsd.edu/eeglab/ee<wbr>glabmail.html</a><br>
To unsubscribe, send an empty email to <a
moz-do-not-send="true"
href="mailto:eeglablist-unsubscribe@sccn.ucsd.edu"
target="_blank"><a class="moz-txt-link-abbreviated" href="mailto:eeglablist-unsubscribe@sccn.uc">eeglablist-unsubscribe@sccn.uc</a><wbr>sd.edu</a><br>
For digest mode, send an email with the subject "set digest
mime" to <a moz-do-not-send="true"
href="mailto:eeglablist-request@sccn.ucsd.edu"
target="_blank">eeglablist-request@sccn.ucsd.e<wbr>du</a><br>
</blockquote>
</div>
<br>
<br clear="all">
<div><br>
</div>
-- <br>
<div class="gmail_signature" data-smartmail="gmail_signature">
<div dir="ltr">Makoto Miyakoshi<br>
Swartz Center for Computational Neuroscience<br>
Institute for Neural Computation, University of California
San Diego<br>
</div>
</div>
</div>
</blockquote>
<br>
</body>
</html>