External Email - Use Caution Hi Douglas, I'm using FSL PALM, but am wondering if there is a way to produce a file like the something.y.ocn.dat file from fspalm. That is, I would like to calculate the mean thickness for each subject and cluster from FSL PALM outputs. Thanks again Colleen
On 2019-02-08 11:16, C.P.E. Rollins wrote: > Dear Freesurfer Developers, > I'm using PALM to run permutation analyses to correct for multiple > comparisons on Freesurfer cortical thickness and LGI data. fspalm from > a command like "mri_glmfit-sim --glmdir lh.lgi.glmdir --perm 1000 2 > pos --cwp .05 --2spaces" produces output files including *.cluster.mgh > - map of signifcant clusters, *.cluster.summary - text file of of > cluster table (incl. sizes, cluster annotation, MNI coordinates, and > significance), and *.y.ocn.dat – text file containing LGI or cortical > thickness values for each subject from significant clusters. I was > wondering if PALM produces similar output? From my understanding the > *clustere_tstat_fwep.mgz file from PALM would be equivalent to the > *.cluster.mgh from fspalm, but is there any way to get a text file of > the cluster table or of the LGI/CT values for each subject from > significant clusters?I would like to report significant clusters (ie. > coordinates or parcellation, cluster size, pvalue) in a table and also > to extract the average lgi/thickness from significant clusters for > each subject. > > Thanks very much > Colleen _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
