Ah okay, thanks for that! I thought ridge regression would give a continuous value right? I thought it might be good to look at this because the patients are high risk where some go on to develop a disorder at some time point which I thought might be interesting as a continuum. Although I'm happy to be told it's probably nonsense.
On Thu, Jan 15, 2015 at 2:23 PM, Yaroslav Halchenko <[email protected]> wrote: > Hi Thomas, > > > On Thu, 15 Jan 2015, Thomas Nickson wrote: > > > > /home/orkney_01/tnickson/Programming/pyVirtualEnv/lib/python2.6/site-packages/mvpa2/base/dataset.pyc > in __init__(self, samples, sa, fa, a) > > 213 if not hasattr(samples, 'dtype'): > > 214 raise ValueError( > > --> 215 "AttrDataset only supports dtypes as samples > that have a " > > 216 "`dtype` attribute that behaves similar to the > one of an " > > 217 "array-like.") > > > ValueError: AttrDataset only supports dtypes as samples that have a > `dtype` attribute that behaves similar to the one of an array-like. > > good way to troubleshoot such troubles when working in ipython, is to > enable pdb (just type %pdb) so it would fall into debugger right at that > point. Then you could inspect > > (Pdb) print samples > (0.26726124191242479, 0.010880186798833041) > > to get a hint that pearsonr returns a tuple of both correlation and p > value. > It still smells like a bug in PyMVPA that we don't wrap it up properly but > as > an overcome you would just need to choose which one to use, e.g. > > errorfx=lambda x,y: pearsonr(x,y)[0], > > But then let's get back altogether to your analysis -- you are using a > classifier, so dealing with classes and then using correlation coefficient > as a > measure (for ordered data) -- doesn't sound quite right unless there is > some > agenda behind your dataset's targets ;) > > > -- > Yaroslav O. Halchenko, Ph.D. > http://neuro.debian.net http://www.pymvpa.org http://www.fail2ban.org > Research Scientist, Psychological and Brain Sciences Dept. > Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755 > Phone: +1 (603) 646-9834 Fax: +1 (603) 646-1419 > WWW: http://www.linkedin.com/in/yarik > > _______________________________________________ > Pkg-ExpPsy-PyMVPA mailing list > [email protected] > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa >
_______________________________________________ Pkg-ExpPsy-PyMVPA mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa
