|
Size: 1190
Comment:
|
Size: 1540
Comment:
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 1: | Line 1: |
| This applescript can be used to control asegstats2table and aparcstats2table commands in order to generate text/ascii tables of freesurfer stats data for all subjects in the directory at once using 4 mouse clicks! | The following scripts can be used to control asegstats2table and aparcstats2table commands in order to generate text/ascii tables of freesurfer stats data for all subjects in the directory at once. Using those scripts will simplify and automate conversion process because subjects’ IDs should be written with some options in the command line depending on freesurfer stats file. So users will not need to write any thing when they use this script instead of command line; '''1- Applescript''' It works using 4 mouse clicks only!'''This script is suitable for MAC only.''' |
| Line 4: | Line 11: |
| freesurferstats2table | [[http://web.me.com/jamaan/EASYNEUROIMAGING/Nuroimaging_blog/Entries/2011/3/10_freesurfer_stats2table_(asegstats2table_and_aparcstats2table)_files/freesurferstats2table.zip|freesurferstats2table]] |
| Line 6: | Line 13: |
| This script is suitable for MAC only. | [[http://youtu.be/o7uX70xstws|The illustration video]] |
| Line 8: | Line 15: |
| The main purpose of this script is to simplify and automate conversion process because subjects’ IDs should be written with some options in the command line depending on freesurfer stats file. So users will not need to write any thing when they use this script instead of command line; | |
| Line 10: | Line 16: |
| For aseg.stats and wmparc.stats | / / / '''2- Bash script''' '''aseg.stats and wmparc.stats''' |
| Line 13: | Line 38: |
| For ?h.aparc.stats | '''?h.aparc.stats''' |
| Line 16: | Line 42: |
| For ?h.aparc.2009s.stats | '''?h.aparc.2009s.stats''' |
| Line 19: | Line 46: |
| For ?h.BA.stats | '''?h.BA.stats''' |
The following scripts can be used to control asegstats2table and aparcstats2table commands in order to generate text/ascii tables of freesurfer stats data for all subjects in the directory at once. Using those scripts will simplify and automate conversion process because subjects’ IDs should be written with some options in the command line depending on freesurfer stats file. So users will not need to write any thing when they use this script instead of command line;
1- Applescript
It works using 4 mouse clicks only!This script is suitable for MAC only.
Please click on the link below to download script;
/ / /
2- Bash script
aseg.stats and wmparc.stats
asegstats2table --subjects bert ernie fred margaret --meas volume --tablefile aseg_stats.txt
?h.aparc.stats
aparcstats2table --subjects bert ernie fred margaret --hemi rh --meas thickness --tablefile aparc_stats.txt
?h.aparc.2009s.stats
aparcstats2table --hemi lh --subjects bert ernie fred margaret -- parc aparc.a2009s --meas volume --tablefile lh.aparc.a2009s.volume.txt
?h.BA.stats
aparcstats2table --hemi lh --subjects bert ernie fred margaret -- parc BA --meas volume --tablefile lh.BA.volume.txt