Hi FSL experts,
i have run MELODIC to do pre-processing on my data. my planned next step is to do randomise on the new filtered data, but using the standard resting-state components available in FSL (ie i will not be using the IC generated by my melodic). However, to check that registration was successful, i re-sliced the melodic_IC file so that i could overlay it on a standard brain. my command was:
flirt -in melodic_IC -ref /usr/local/fsl/data/standard/MNI152_T1_2mm_brain.nii.gz -out melodic_IC_hr -applyxfm -init /home/fsl/4D_180vols_combined_list/BP_scan1_BPD182_01JOH_4D_180_MELODIC_OUTPUT_ALL_SUBJECTS.ica/reg/example_func2standard.mat
now though, when i look at the new melodic_IC_hr file in fslview, the IC images are significantly off-centre in comparison to the background standard brain image. though i wont be using the melodic_IC file, i am now concerned that all my filtered_func_data.nii.gz files are also not properly registered, even though when i view the reg report from the melodic, registration appears to have gone well.
since i wont be using the melodic_IC files, i may be worrying over nothing, but i don't want to have a problem at the next stage of analysis.
any advice would be appreciated!
thanks
joe starke
masters student
university of cape town
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