http://www.k-wave.org/forum/topic/acoustic-wave-propogation-estimates-on-mri-structural-skull-scan-black-bone Support for the k-Wave MATLAB toolbox en-US Tue, 12 May 2026 22:03:00 +0000 http://bbpress.org/?v=1.0.2 q http://www.k-wave.org/forum/search.php http://www.k-wave.org/forum/topic/acoustic-wave-propogation-estimates-on-mri-structural-skull-scan-black-bone#post-9013 Wed, 24 Jan 2024 11:21:24 +0000 Bradley Treeby 9013@http://www.k-wave.org/forum/ <p>To do a direct conversion, you would need to know how to map the properties of the black-bone image to density. We've done this recently for PETRA images taken on a Siemens 3T, see <a href="https://github.com/ucl-bug/petra-to-ct">here</a>. Alternatively, you could segment the skull from the MR (e.g., using <a href="https://simnibs.github.io/simnibs/build/html/tutorial/head_meshing.html">SimNibs</a>) and then assign book values for the skull properties. </p> http://www.k-wave.org/forum/topic/acoustic-wave-propogation-estimates-on-mri-structural-skull-scan-black-bone#post-9006 Wed, 17 Jan 2024 13:40:21 +0000 wirsum 9006@http://www.k-wave.org/forum/ <p>Hi, </p> <p>I am trying to replicate a paper that does acoustic and thermal modeling with k-Wave (<a href="https://elifesciences.org/articles/40541)" rel="nofollow">https://elifesciences.org/articles/40541)</a>. They simulated the acoustic wave propagation of a focused ultrasound protocol. I thought it might be a good idea to start with the "Heterogeneous Propagation Medium" example, as the modeling has to be done at the skull.<br /> Now to my understanding, if a CT-scan of a skull is used, the sound speed and density necessary in this example would be derived from the function hounsfield2density.<br /> However, my lab can't do a CT-Scan. We have MRI structural scans (black bone) available which provide high image contrast between bone and other tissues (also see here: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3473988/" rel="nofollow">https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3473988/</a> for the type of sequence). </p> <p>So I have the perhaps naive question whether there is an equivalent function to "hounsfield2density" that could also return the sound speed and density but just from the black bone scan (not from the CT Scan) </p> <p>Thanks :) </p>