<div>Hello. I have some MR-volumes stored in ANALYZE format which i need to modify. </div>
<div>I just need to be able to invert contrast, flip dimensions and cut noisy slices away.</div>
<div> </div>
<div>In matlab i read these using SPM2-toolbox, and in c++ i use ITK to read and VTK to visualize. But these are all for developing algorithms to analyze the images, and a visual tool would be better to do these rough preprocessing i think.
</div>
<div> </div>
<div>Before I use these tools i would really like to preprocess the images very roughly, meaning making sure they are all turning the same way and all have removed noise slices and so.</div>
<div> </div>
<div>I have tried this tool called MIPAV which is written in java. This is a good tool, but unfortunately it seems that MIPAV does not change the header information when i for example flip dimension 1 and 2, or when slices are cut away etc.
</div>
<div>This means that the changes i perform in mipav does not take effect when i load the images in matlab using SPM2,(and I am not sure about ITK, but i think its the same there).</div>
<div> </div>
<div>So is there a good tool for performing these small preprocessing steps, which also stores the changes in the header file?</div>
<div> </div>
<div>And how do you guys perform this simple tasks, Do you use ITK for it or what?</div>
<div> </div>
<div>I hope somebody has a good recommendation :)</div>
<div> </div>
<div>Thank you very much.</div>