If you have a Mac, Osirix App is a real powerfull tool. With this program you do 3D Curve MPR and than you can measure the axis and get gut estimation of the volume.
Thanks Steven, but I want to get the real volume, which needs some manual segmentation. We want to compare the MRI BME volumes with other modalities. For these we have a software which is able to get the real volume.
even though, it has been more than one year, since you came up with this question, I remembered it when I found this publication on this topic. Maybe it helps you.
Osteoarthritis Cartilage. 2013 Jun;21(6):806-14. doi: 10.1016/j.joca.2013.03.007. Epub 2013 Mar 18.
A rapid, novel method of volumetric assessment of MRI-detected subchondral bone marrow lesions in knee osteoarthritis.
Ratzlaff C, Guermazi A, Collins J, Katz JN, Losina E, Vanwyngaarden C, Russell R, Iranpour T, Duryea J.