Hello,
I decided to post my question again since I haven’t got any answer to my
original posting. If I am asking for something too obvious just tell me
where is it in the help files or in FSL web course. Thanks in advance. Below
is my unanswered question.
Hello Everybody,
To start with the question I would like firstly to say that I have similar
problem to that described by Ed Vessel from U. of Southern California.
Namely I have only a limited number of slices taken from each subject. For
that reason registration is quite poor and in the result I loose data from
outermost slices because data from one or two subjects are missing. This is
very frustrating and either SPM nor FSL have routines to calculate valid
statistics from not complete set of data. Nevertheless Stephen Smith
proposed partial solution to this problem – that is to run dilate command
(avwmaths <input> -dil -dil <input>) on the images in reg_standard
directory. Now my problem is that higher level analysis firstly creates such
directories but afterwards it deletes them – so they appear to be temporary.
It is feasible to create reg_standard directories manually of course but the
problem stays the same, since higher level analysis will delete those
directories anyway. Hence the questions:
1) Is there any way of sparing reg_standard directories in higher level
analysis ?
2) If I create reg_standard directories manually will higher level analysis
use them or it will create its own while deleting those created manually ?
With best regards
Michal Kuniecki Ph.D.
Department of Psychophysiology
Institute of Psychology
Jagiellonian University
Krakow, Poland
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