Hi Glen, thanks for getting back to me. I have actually managed to get the programme running now. It was my fault for not adding the path to both the MT directory and the affine folder within the MT directory (I am new to MATLAB!), sorry about the confusion. In the readme file the first reference does not have citation info, please can you let me know the full citation so I can see how fascicle length and pennation angle are calculated? I am hoping to use the program for a study I am planning so will of course also use this to reference your work.