Which version of FS are you using? I don't think it was in 5.3, so you
might have to use 6.0 version of mri_glmfit. Also, before you compute
and report the mean correlation inside of a significant cluster, you
might want to read this paper:
Puzzlingly High Correlations in fMRI Studies of Emotion, Personality,
and Social Cognition
https://www.google.com/url?sa=t&rct=j&q=&esrc=s&source=web&cd=2&cad=rja&uact=8&ved=0ahUKEwj6wuqb_rzbAhVnslQKHa4tAAkQFggzMAE&url=https%3A%2F%2Fwww.edvul.com%2Fpdf%2FVulHarrisWinkielmanPashler-PPS-2009.pdf&usg=AOvVaw0C6XKQkj4hypGKRIaZFLc0
On 6/5/18 10:24 AM, jahanvi patel wrote:
Hello together,
We used the following command to perform correlation analysis. But we
didn't obtain the "pcc.mgh" file which we want to extract the
correlation coefficient from the significant cluster.
Is there a command or way to generate the pcc.mgh file?
Thank you in advance
mri_glmfit \
--glmdir GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2 \
--y lh.testretest_only_TP2.thickness-pc1.stack.fwhm15.mgh \
--label lh.testretest.fsaverage.cortex.label \
--fsgd GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/TP1_TP2.fsgd \
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/main.mtx \
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_age.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_CesD_score.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_STATI_state.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_STATI_trait.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_total_medi_min.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_FFMQ_f1.mtx
\
--C
GLM_dir_corr_behavior_lh_CT_tp1_tp2_plus_FFMQ_f1_f2/contrasts/Delta_FFMQ_f2.mtx
\
--surf fsaverage lh
Best,
Jahanvi
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