External Email - Use Caution Hi Benjamin:
I tested with the clipping, and it works ok with a CT image. Sincerely Gonzalo Rojas Costa El mié, 8 de mar de 2023, 14:39, Benjamin Billot <bbil...@mit.edu> escribió: > Yes, agreed. > > Gonzalo: Also, if SynthSeg still gives you a bad result after clipping, > you might want to check that the image header is not corrupted. > > Best > > Benjamin > ------------------------------ > *From:* Iglesias Gonzalez, Juan E. <jiglesiasgonza...@mgh.harvard.edu> > *Sent:* 08 March 2023 12:25 > *To:* Gonzalo Rojas Costa; freesurfer@nmr.mgh.harvard.edu > *Cc:* Benjamin Billot > *Subject:* Re: SynthSeg with CT images. > > > Dear Gonzalo, > > Can you please try clipping the input to Hounsfield between 0 and 80? That > should do the trick. If you have trouble with this, feel free to send me > scan so I can take a look. > > Benjamin: maybe we should add this as a flag, as we do in SynthSR… > > Cheers, > > /E > > > > -- > > Juan Eugenio Iglesias > > http://secure-web.cisco.com/1oY_Ta7QUv3TybD8UgzuVG9Dc0uElb0r5sAAb2tL8RYcVO1ad1RZJfZPIrjEo6XO3v9O87WCfbACLlPabg6MB3o3JWN1ltmZzhc5XOzhtnEfzE0VGCM3drJmNP7SzceCkqlvjYXVetsAHj-k8cw6SLEwd5XlnpPjhtnrE4mEBu0E6-Q9jhYYyMf9_YnmfwnTbuNqJwDSLhA5XLroRcyZLHVqsEnrI1AcevgHk8m5m4A_-hxHovL5R0tmMkog5sZAGH7vMawArRXhN5kaGzBX-ub8yHgjY7jVFczyhKtzO6F_uGy5HEci-MH4bhM4m-4Xq/http%3A%2F%2Fwww.jeiglesias.com > > > > *From: *Gonzalo Rojas Costa <gonzalo.rojas.co...@gmail.com> > *Date: *Wednesday, March 8, 2023 at 12:04 > *To: *"freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu> > *Cc: *"Iglesias Gonzalez, Juan E." <jiglesiasgonza...@mgh.harvard.edu> > *Subject: *SynthSeg with CT images. > > > > * External Email - Use Caution * > > Hi: > > > > I tried SynthSeg using CT images, but I got very bad results... CT > images must have some specific characteristics? I tried with axial > acquisition and volumetric one.... > > > > Sincerely, > > > > > > Gonzalo Rojas Costa > > Department of Radiology > Clínica las Condes > Lo Fontecilla 441, Las Condes, Santiago, Chile. > Tel: 56-2-2105170 > Cel: 56-9-97771785 > > https://secure-web.cisco.com/1dx-ON0IVqdFsAlkwbnFP-5CWyzUsWOqcXmV2sh2KowfhnOPME32OTUSeEIxP0nZZHuxGlqiOa0yyM1EDsnjjGyhKQeOjfeL70TeYyFH9thOaym_uT9LbfWIoXZAlwRSeUCNuYiIW89EZoeXD-Gt4kNfFTEznkWgcwzAhVxdxGAtfmRoak5NoxK5wOzdOrGmr7GT8HFXir-Fu9aHzVLXUql-nEuO7ZHH_SyETSIR_8HZZIIaDI7kMV02TYgGVhMFFBXW4MkoK8956DcaRJRn8SZswrVzjSS9OAxlX7FSwBpiO0rXhm5F92uactc8TRiak/https%3A%2F%2Fscholar.google.com%2Fcitations%3Fuser%3DLO7LZ3oAAAAJ > <https://secure-web.cisco.com/1X4JTWBblTD8tld8oBtoX_hRATMKAHXt1kz8xQ7YPlXYPCFqdXfA0H2JSQd7Sf9iABw7ZXWREb6ZPRpqIjLu5kUVANuSPsw4E1FQrq8EcNcxVJLcJP8_61lsQFWfJtoEXAXr8kACcKq_PDEnngdLDzo-x-Napt2ob06RC1xuPwm1RwJWaPMun-E7X8rrcjsD6xf4UupYvJDfj8OSi7Cvnpey6_7zNIF4GBjHNUOcHEG-Ie9_RuFiTgQfOuTTQi1XDQmJ06W2r5MDwitXqElbSh7QTBTa6CxuYVhc03x81FuP1eS1BiUMk4yxWVGvd2JnzDm38adwdkUrQ4Esm7Ojhsw/https%3A%2F%2Fscholar.google.com%2Fcitations%3Fuser%3DLO7LZ3oAAAAJ> > https://secure-web.cisco.com/1WfM5q5JiWue1joAWuZpJ-2gnXIfCTH4jF5i5mncbvG8VTbpepiWrZke6WmmZMgAgoKJE29TQDYVXrLaFAIATApuZkVxgDWHQcJ_2CR90AMpcKuMCTBPzze_8k34CuApkK71BRD5lKroK1GzyeaDtrGErzMXaH7qKgvUdJgv1MKrApnitPytnvSqRY_rLBHZYusFRl63drgxq9THhMAODbPy_ssC-NfB-xCjb-4WRuMNEsnCy7NNRke5cYl3C_9pcO19L7NBw4y4EzCBU7iVHNFd6WPrhNGSJdx57dMbbqmcPt-WmfOdiOkMX5y3j5SjI/https%3A%2F%2Fwww.researchgate.net%2Fprofile%2FGonzalo_Rojas2 > <https://secure-web.cisco.com/1jIR1VD1EGr6FdxqTGgScWCn_mHW5DPrMZAjfRggLiGtOamcGRinZiM0HNnQE0ybVKUqF9WJYOq9a4QJzt0qFHoBw_eIv85hrkDL1pJNd7WrTFbj1RjcPFatMfv-bsxG8I7zoXYh2maIFCWC4iz5ELXiKCr1WTkvsIeZXu5mQCEkJ3eB4sCbN5x-CT5YEOaxPEJdOQ_t3mNDKTN5ORe8om-TzD7U8VDs-P68_-68BvQm3f7CDK_xEW4nPWvaGT7Icx1cqkRXMZKWzs340o4vkCM4EJJ-o0J_RuNGaGs91o5BtOKE6AE0cFdL_6s2NTOKhD2uLQp3ofHyAuuQKkr72vw/https%3A%2F%2Fwww.researchgate.net%2Fprofile%2FGonzalo_Rojas2> > > https://secure-web.cisco.com/18CztnN9siLRgJ0-UmgEchKrQq1yBr_pJu3oqRmA8vMLAAx2KUpX8WKcfOvUur0y9Cykrj6i_a3f4nFXwFGMrUdL5HUYiFNgMjTjD2FAuuUY133eg55PS_fcek1FvV11BdXxiAYyhlZeO-kSLZ6czfh_fO1dPiXMnmJ2LS2N-zG11eMGTKTBNMWfCX6qeTo30yIKbC6eJfMkUrbZbOpCpuDcTnO1RbBhuVnJCgaLE89Ydqwk8etX6d-IPgUvLnW0Sx5-Etq5z28SKb0Rr8rvnW5HkNFg7sQBUjxQqfttBm1xe8vg9_KnuSnJvlJGF2Ld9/https%3A%2F%2Fcvn.fecyt.es%2F0000-0002-6228-2678 > <https://secure-web.cisco.com/1yA9l7ISJLI6AsyMtjg6tqVLF4b_n1UlUVhia2mXbDUAX5fGZyZcRqNTfuohp8mAbc_ACa3hgSPYntMqG1-0fDtSgts2OmLxz4QnX6ZHQZKM5PyA7BrbGBzONTFUBMDYgc9zYNZbdJe4xL_hLWAo2R4UEFgI5rD87fHAWQabgaZwrGmQo79CFJvlemPIiBO2e7KxArWWjicG-y_ekICfjdeLuFvdQ-w0tXfXupw3t0jYHJ_XemfYZZSYZnP0Q_2UclHE7ZpsQ_uAGCpXBiR2TmPLXbCn5PG0hA4Drp3aBhP-kW9P-NRZeMBjGO6M-grFIu4fwZrTuuKF6wHpDWR0qWQ/https%3A%2F%2Fcvn.fecyt.es%2F0000-0002-6228-2678> > http://secure-web.cisco.com/1wJM_skjI0l0zygtqAs442I6qKn4WaYZxNrNXu6J9to22-8I_uX739EMQ8WtN6BEtH_X3t3XEZW2i1FSs9a7HE7zVf2BEPKeU-cnTa1HzYLT-P8gGIagYukTq7s1G68P55_b2I5XMn6_b2L0GxCUEOBk5YlcBElbGXgaUXtLW5GzgtrjZt7k1tPN6ZWdZUil3aD55256FUXtWSZQIcGn7DQRYmHQn8uyvGiiJ5xU0d_X9_EKBhCvtLbr1ZtfzphcL1eKwsHnd8-dhXVY1MPQi4fhzMve3HEEfYSjOUcehQ0OnINPb1zLNIzx1zXAslHLn/http%3A%2F%2Fwww.researcherid.com%2Frid%2FB-2036-2013 > <http://secure-web.cisco.com/1WbHoWnrfeHvPRvJjfNf_577rSGYT1ApJAnQKa2Hbt1JxqbBvW3yNeTFIJZhl6BJGKU5bn0BFseKD5SbdgzeGZXl9W5z_RLkxMO3tMJ3Ho7EimcZsInft7fSljrQ8unGnsbL3GURvWX9kt3iutb_FKFOwbHjFq6Vfk98f5ln4uKfUHTK8Sz_oHjvvyccS3R3Pg5QKPmh8wxwGN2DOUx2oP5LesBqeYLf2qZuOcuxOFUxIlCHsGkvY7sCIQVkae_uCtlklxMOBWMAsQdHFjG7j_3U1BZSigYA8URPVjYLmvq9rmRDxFkOMvweirFk1J0VYnmuRf_N4KM3kEE53S6FIyw/http%3A%2F%2Fwww.researcherid.com%2Frid%2FB-2036-2013> > https://secure-web.cisco.com/1cCGpAkoZIpj8dp3v1C-VWfKKTjUqACatHALHubNHZqPhLgF6K4zzebAiCp7eBt_76PGtyz--KVh2eLdYWzq9rxYkEDKeai7r_6uzRynGDjWPyYk3DbULP331cQ-L8mURoV3K-Zlxn44oXxN427h8d5DQSfc9KhNJYNU5OcaMRIVWhdDt5lE13MOWru18NqtQ2cker_OpB9HcpshEbDpfpx-eqLupjDdPwkfCnsICmMq1XtNx3dt5AOxY2JfKXU4GIuTptB8IzGm8E3dE6hz-4qSr4O1fsj897Z1JTxeSfaQymujAI_isi4TdXUqHYR0O/https%3A%2F%2Fcl.linkedin.com%2Fin%2Fgonzalorojascosta > <https://secure-web.cisco.com/1ZasoGFuD7Kwh5m95aUJSJ7Cq9E3amXs01l9LmTC_TxXWGvNXoUNsQhbXAsKeEpwqtY4DKxxagBBuD4DytiQwUREeKPADZfRMh1UMYBkVeHwzmYFMbeRy0n0FENBHCrqjuaMPIlvbxQgCBFBxBbUnbwrsjIxqvYuiS4j9vOXm7HyCS3BZmODfmvJZeq5sJpS8X3LgF6gCz_P4GUPTwQN0rmQMsUyDehQmYabjMbBg14zRFwrKdbKawRFOXFF4rsNzs52H1LIgz4SV12ffYLdV-e-br5KKz4A0FdWreZrz7pQdiyS_pRNhW6z2qwgc89ux1hi9UW6zoP9RmoozejIZEw/https%3A%2F%2Fcl.linkedin.com%2Fin%2Fgonzalorojascosta> > > The information in this e-mail is intended only for the person to whom it > is addressed. 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