open-discussion > RE: Reproducibility analysis mICA
Apr 9, 2018  05:04 AM | Tawfik Moher Alsady
RE: Reproducibility analysis mICA
Hi Will,

Question 1:
The split-half script generates 2*N sub-folders where N is the number of repitions. For each subfolder you have to call the mica command in order to calculate mICA for that random subgroup.
In your example, those subfolders should lie in $working_dir/results/out_50

Step 2 should be like that:

export MICADIR=/Users/wasimkhan/Documents/mICA_Toolbox

Then start the following command for each sample 1-50 and each group 1-2:

./mica $working_dir/input_list $working_dir/results/out_50/sample_XX/groupXX_input.txt $working_dir/results/out_50/sample_XX/groupXX 2,4,6,8,10 -mask $working_dir/masks/PCC_and_Precuneus_mask_thr20_Harvard.nii.gz -extra -a concat -- sep_vn --nobet --bgthreshold=10 --tr=1 --report --mmthresh=0.5 --Oall

I guess performing the previous steps as suggested here will allow py/ be able to calculate the reproducibilty.

Let me know if it works.


Threaded View

Will Khan Mar 21, 2018
Florian Beissner Mar 22, 2018
Will Khan Mar 26, 2018
Tawfik Moher Alsady Mar 27, 2018
Will Khan Mar 28, 2018
Will Khan Mar 28, 2018
Tawfik Moher Alsady Mar 29, 2018
Will Khan Apr 4, 2018
RE: Reproducibility analysis mICA
Tawfik Moher Alsady Apr 9, 2018
Will Khan Apr 9, 2018