Re: [HCP-Users] mean intensity for FIX-denoised 7T data
Ah okay; remeaning as you suggested works well (restores the expected Tmean/Tsd). Thanks! From: Glasser, Matthew [glass...@wustl.edu] Sent: Tuesday, February 21, 2017 8:40 PM To: Ely, Benjamin; HCP-Users@humanconnectome.org Cc: Brown, Tim Subject: Re: [HCP-Users] mean intensity for FIX-denoised 7T data Ugg, I thought we fixed that. You can take the mean image from the uncleaned data and add it to the cleaned data to have the mean present if you need it for some reason. Remember if you are concatenating across scans you will need to have the data demeaned. Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of "Ely, Benjamin" <benjamin@mssm.edu<mailto:benjamin@mssm.edu>> Date: Tuesday, February 21, 2017 at 2:59 PM To: "HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>" <HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>> Subject: [HCP-Users] mean intensity for FIX-denoised 7T data Hi HCP team, The FIX-denoised 7T data released by the HCP appear to have a mean intensity of ~0, versus 10,000 for the pre-FIX 7T data due to intensity normalization. By contrast, the most recently released 3T data from the HCP retain a mean value of ~10,000 following the ICA-FIX step. Is this a deliberate change? I couldn't find anything about it in the documentation. I've run into a similar issue with my own data when using versions of FSL > 5.0.6, which automatically demean data when regressing out ICA components. Thanks, -Ely ___ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_mailman_listinfo_hcp-2Dusers=DwMFAg=shNJtf5dKgNcPZ6Yh64b-A=wkbWuLo29rcKlS_jqY-IWyhtdbOPOJ4YiqipZSzm0r4=txKAJX1LPgrqP0eohPUSAsYO4PnEi22Gf2jr8NRqBJQ=Gt1AmpygbCgGITDYrqlO6Iphci72-3f_uRn2tly9Kew=> The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] mean intensity for FIX-denoised 7T data
Ugg, I thought we fixed that. You can take the mean image from the uncleaned data and add it to the cleaned data to have the mean present if you need it for some reason. Remember if you are concatenating across scans you will need to have the data demeaned. Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of "Ely, Benjamin" <benjamin@mssm.edu<mailto:benjamin@mssm.edu>> Date: Tuesday, February 21, 2017 at 2:59 PM To: "HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>" <HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org>> Subject: [HCP-Users] mean intensity for FIX-denoised 7T data Hi HCP team, The FIX-denoised 7T data released by the HCP appear to have a mean intensity of ~0, versus 10,000 for the pre-FIX 7T data due to intensity normalization. By contrast, the most recently released 3T data from the HCP retain a mean value of ~10,000 following the ICA-FIX step. Is this a deliberate change? I couldn't find anything about it in the documentation. I've run into a similar issue with my own data when using versions of FSL > 5.0.6, which automatically demean data when regressing out ICA components. Thanks, -Ely ___ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
[HCP-Users] mean intensity for FIX-denoised 7T data
Hi HCP team, The FIX-denoised 7T data released by the HCP appear to have a mean intensity of ~0, versus 10,000 for the pre-FIX 7T data due to intensity normalization. By contrast, the most recently released 3T data from the HCP retain a mean value of ~10,000 following the ICA-FIX step. Is this a deliberate change? I couldn't find anything about it in the documentation. I've run into a similar issue with my own data when using versions of FSL > 5.0.6, which automatically demean data when regressing out ICA components. Thanks, -Ely ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
