Tolerably Obsessive Registration and Tensor Optimization Indolent Software Ensemble
The current release is TORTOISE V2.1.0, available on the download page
Click here for version update information.
To get started with TORTOISE: Quick Start Guide
Please register to the TORTOISEDTI Google group for questions and help at:
*See note at bottom of the page
Second TORTOISE Hands-on Course
September 29th, 2014
NIH campus, Natcher Hall Rooms C1/C2
Kindly Hosted by the AFNI Bootcamp
TORTOISE Course Details
8:30 am - 8:35 am Welcome Address
8:35 am - 8:50 am Diffusion Tensor Imaging (DTI) Acquisition tips and tricks
Speaker: Joelle Sarlls
8:50am - 9:50 am - General Considerations on the Diffusion Processing Pipeline
- The advantages of a good processing Pipeline
- Concept of Artifacts and Artifacts Remediation
- Diffusion Consequences of EPI Distortions
Speaker: Carlo Pierpaoli
9:50 am - 10:15 am - Introduction to TORTOISE
- ACPC Reorientation of an Anatomical Image with MIPAV
Speakers: M. Okan Irfanoglu, Amritha Nayak
10:15 am - 10:30am Break
10:30am - 11:15am Overview of DIFFPREP
Speaker: M. Okan Irfanoglu
11:15 am - 12:00pm Overview of DIFFCALC
Speaker: Carlo Pierpaoli
12:00 am - 12:15 pm The latest and the greatest in TORTOISE: DR-BUDDI
Speaker: Okan Irfanoglu
12:15 pm - 12:30 pm Q & A
Step-by-step instruction manual can be downloaded from: afni_tut_instructions.pdf
The dataset to be used in the bootcamp can be found at: http://afni.nimh.nih.gov/pub/dist/tgz/AFNI_bootcamp_TORTOISE_tutorial_data.tar.gz
For more details please visit : http://afni.nimh.nih.gov/bootcamp/
Why TORTOISE? Our software is not for rabbit type people; if you need to process diffusion data at the scanner console you do not want to use our software.
Why obsessive? We have realized that DTI is a wonderful quantitative technique which is unfortunately susceptible to all sorts of artifacts and confounds. We spent a lot of time trying to obtain reliable DTI measurements, which has made ourselves and our software a little obsessive. Why indolent? Our emphasis has been on developing conceptually rigorous routines more than optimizing the speed and user-friendliness of the software.
TORTOISE was presented at the ISMRM meeting in Stockholm, Sweden in 2010. Please reference the following abstract if you use TORTOISE in your work.
C. Pierpaoli, L. Walker, M. O. Irfanoglu, A. Barnett, P. Basser, L-C. Chang, C. Koay, S. Pajevic, G. Rohde, J. Sarlls, and M. Wu, 2010, TORTOISE: an integrated software package for processing of diffusion MRI data, ISMRM 18th annual meeting, Stockholm, Sweden, #1597 (pdf)
The TORTOISE software package is for processing diffusion MRI data, and it contains three main modules:
- DIFF_PREP - software for image resampling, motion, eddy current distortion, and EPI distortion correction using a structural image as target, and for re-orientation of data to a common space
- DIFF_CALC - software for tensor fitting, error analysis, directionally encoded color map visualization and ROI analysis
- DR-BUDDI- software for EPI distortion correction using pairs of diffusion data sets acquired with opposite phase encoding (blip-up blip-down acquisitions).
Some common questions and answers about our software packages are listed in the FAQ.
If you are interested in contributing to these wiki pages, please contact us in order to create an account for you.
*This picture is adapted from an image we downloaded from the web. We would like to give credit to the original author(s) who we have been unable to identify. Please contact us at email@example.com if you know the origins of this picture.