Flip left and right orientation and check image orientation in FSL

FSL image_flip/check is an applescript that written to flip left and right orientation of group of brain images. It can be used as well for checking image orientation of group of images in sequence where presentation of each image lasts for a proper time (defined by user; 10 seconds as an example).
 Click her to download script


Please leave your feedback if you like this tool or a suggestion if you think it needs to be improved!


Related links
Batching FSL tools and utilities using Applescript "1" (BET)
Batching FSL tools and utilities using Applescript and bash script "2" (SIENAX)
Batching FSL tools and utilities using Applescript "3" (fslsplit)
Batching FSL tools and utilities using Applescript and bash script "4" (fslchfiletype) Analyze2Nifti--Nifti2Analyze
Batching FSL tools and utilities using Applescript "5" (FIRST)

Batching FSL tools and utilities using Applescript "5" (FIRST)

FIRST is a model-based segmentation/registration tool. It segment subcortical brain regions using Bayesian shape & appearance models. For further reading please visit the following link
http://www.fmrib.ox.ac.uk/fsl/first/index.html
The following script has been written to automate and simplify all five steps and two Quality Assurance processes. Click her to download script.

Please leave your feedback if you like this tool or a suggestion if you think it needs to be improved!

Related links

Batching FSL tools and utilities using Applescript "1" (BET)

Batching FSL tools and utilities using Applescript and bash script "2" (SIENAX)

Batching FSL tools and utilities using Applescript "3" (fslsplit)

Batching FSL tools and utilities using Applescript and bash script "4" (fslchfiletype) Analyze2Nifti--Nifti2Analyze

Flip left and right orientation and check image orientation in FSL

Batching FSL tools and utilities using Applescript and bash script "4" (fslchfiletype) Analyze2Nifti--Nifti2Analyze

This script has been written to automate FSL utility (fslchfiletype). Using this script user could convert multiple images at once using a few mouse click. There are six options; 
Analyze (img) <---> Nifti (nii)
Analyze (img) <---> compressed Nifti (nii.gz)
Nifti (nii) <---> compressed Nifti (nii.gz)


To download this script please click on the following link nifti2analyze_applescript

I wrote a bash script to do the same job. It works on both Linux and MAC, user needs to copy script to data directory and execute it from there. This script works on bash shell only where it can be executed using "chmod +x" command as following;

chmod +x Analyze2Nifti-Nifti2Analyze.command or chmod +x Analyze2Nifti-Nifti2Analyze.sh

nifti2analyze_Bash script

Please leave your feedback if you like this tool or a suggestion if you think it needs to be improved!

Related links

Batching FSL tools and utilities using Applescript "1" (BET)

Batching FSL tools and utilities using Applescript and bash script "2" (SIENAX)

Batching FSL tools and utilities using Applescript "3" (fslsplit)

Batching FSL tools and utilities using Applescript "5" (FIRST)

Flip left and right orientation and check image orientation in FSL