Dear HCP Colleagues,
Here I want to obtain an group-average areas for a task activation, for example
for the Emotion task, and I want to get the activation areas either from FEAR
or NEUT task by constrast to the fixation duration. The HCP website said that
the Q1 release contained such kind of (mybe) data,
http://www.humanconnectome.org/documentation/Q1/data-in-this-release.html#group_average
, called HCP_Q1_GroupAvgUnrelated20.zip, however I did’nt find the entrance
for downloading from the HCP database. I am not sure it is not available any
more.
Additionally, if I want to find these activation areas from the minimally
processed data (the path in the S500 release (based on volume data) is like
“…100307/MNINonLinear/Results/tfMRI_EMOTION_LR…”), but I have a little
confusion about the adhered .fsf file, tfMRI_EMOTION_LR_hp200_s4_level1.fsf .
The processed task fMRI volume data, for example, tfMRI_EMOTION_LR.nii.gz, has
been detrened, but not been regressed out the head motion (although it contains
the transformation file, Movement_Regressors.txt ) and white matter/CSF. And
it has not been filtered to removing the noise. I am not sure my understanding
is right ? However, it seems that the confiuration file,
tfMRI_EMOTION_LR_hp200_s4_level1.fsf, is directly acting on the unpolished
data, tfMRI_EMOTION_LR.nii.gz. I am not sure it is right for calling FSL/Feat ?
Another question is for processing the filtered/regressed/demean-ed
tfMRI_EMOTION_LR.nii.gz (I assumed my above understanding is right so I
continue to try…). The demean-ed task fMRI data is floating around 0, for
example [-310, 320]. Unfortunately the FSL/Feat is not able to generate the
mask during the “Prestats” step, the log file is as follows,
<log>
……
Prestats
/mnt/software/fsl5.0/bin/fslstats prefiltered_func_data -p 2 -p 98
-114.3 125.35
/mnt/software/fsl5.0/bin/fslmaths prefiltered_func_data -thr -108.2 -Tmin
-bin mask -odt char
……
</log>
Certainly here the function “fslmaths” is definitely not able to generate a
meaningful mask by the “-108.2 -Tmin” parameters since the data distribute on
the both sides of 0. Since the HC data has already been stripped, so the
mask.nii.gz is already there (Actually the “-Tmin” doesn’t make any sense
here). Maybe this question should be posted to the FSL forum, but it is
related to the HCP data so I posted it here too.
Any reponse would be Appreciated. Thank you.
Nico Zuo
--
Institute of Automation
Chinese Academy of Sciences
Beijing 100190, China
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