scitran/dti-error repository overview

⁠scitran/dti-error

Calculate RMSE between the measured signal and the ADC (or dSIG) based on tensor model fit provided by dtiInit⁠.

This gear calculates the histogram of differences between DTI based predictions (ADC or dSig) with the actual ADC or dSig data. Larger deviations suggest noisier data. This is one of a series of methods we are developing to assess the reliability of diffusion weighted image data.

⁠Build the Gear

git clone https://github.com/scitran-apps/dti-error
cd dti-error
./build.sh

⁠Example Usage

First download a dtiInit⁠ output archive and save to disk (e.g., dtiInit_27-Jan-2017_18-51-24.zip used below). Then run the commands below:

# Directory and file handling
DTIINIT_OUTPUT=dtiInit_27-Jan-2017_18-51-24.zip # Use the name of your dtiInit output
INPUT_DIR=`pwd`/input/dtiInit_Archive
OUTPUT_DIR=`pwd`/output
mkdir -p $INPUT_DIR
mkdir -p $OUTPUT_DIR

# Run the Gear
docker run --rm -ti -v $INPUT_DIR:/flywheel/v0/input -v $OUTPUT_DIR:/flywheel/v0/output scitran/dti-error:v0.1.0

⁠Compile the Matlab Executable

Clone required code and prepare for compilation:

git clone https://github.com/scitran-apps/dti-error
git clone https://github.com/vistalab/vistasoft

In Matlab (e.g., r2015b):

mcc -m dti-error/src/gear_dtiError.m -I vistasoft -I dti-error/src