Viewing 3 posts - 1 through 3 (of 3 total)
Viewing 3 posts - 1 through 3 (of 3 total)
- The forum ‘Support Forum (ARCHIVED – Please use Slack Channel instead)’ is closed to new topics and replies.
When making the anat.nii file which plane do I use? I have an axial plane and a coronal plane from a T1 and T2 weighted scan
I am using dcm2niix to convert the DICOM into nii files. Which format do I export in?
I’d advise to use a full-brain image with the best resolution available. If you have a highres full brain T2, maybe use this one since it shows the STN. Planes don’t really matter, it should be as high-res in all dimensions as possible (I guess an optimal file could e.g. be a 1x1x1mm T2 or T1).
If you use a T1, please name it anat_t1.nii in order that Lead-DBS uses the T1-MNI template for normalizations (this only works with ANTs).
dcm2nii is the optimal choice, please export the files in 4D nifti format (.nii ending).
I am still having issues with anatomy file. I have a coronal T2 weighted MR scan and have converted into 4D nifti. However, it stills gives me an error in Matlab “use suitable anatomy file”.
What are my options,
|cookielawinfo-checkbox-analytics||11 months||This cookie is set by GDPR Cookie Consent plugin. The cookie is used to store the user consent for the cookies in the category "Analytics".|
|cookielawinfo-checkbox-functional||11 months||The cookie is set by GDPR cookie consent to record the user consent for the cookies in the category "Functional".|
|cookielawinfo-checkbox-necessary||11 months||This cookie is set by GDPR Cookie Consent plugin. The cookies is used to store the user consent for the cookies in the category "Necessary".|
|cookielawinfo-checkbox-others||11 months||This cookie is set by GDPR Cookie Consent plugin. The cookie is used to store the user consent for the cookies in the category "Other.|
|cookielawinfo-checkbox-performance||11 months||This cookie is set by GDPR Cookie Consent plugin. The cookie is used to store the user consent for the cookies in the category "Performance".|
|PHPSESSID||session||This cookie is native to PHP applications. The cookie is used to store and identify a users' unique session ID for the purpose of managing user session on the website. The cookie is a session cookies and is deleted when all the browser windows are closed.|
|_ga||2 years||This cookie is installed by Google Analytics. The cookie is used to calculate visitor, session, campaign data and keep track of site usage for the site's analytics report. The cookies store information anonymously and assign a randomly generated number to identify unique visitors.|
|_gat_gtag_UA_52019623_1||1 minute||This cookie is set by Google and is used to distinguish users.|
|_gid||1 day||This cookie is installed by Google Analytics. The cookie is used to store information of how visitors use a website and helps in creating an analytics report of how the website is doing. The data collected including the number visitors, the source where they have come from, and the pages visted in an anonymous form.|
|CONSENT||16 years 5 months 17 days 13 hours||These cookies are set via embedded youtube-videos. They register anonymous statistical data on for example how many times the video is displayed and what settings are used for playback.No sensitive data is collected unless you log in to your google account, in that case your choices are linked with your account, for example if you click “like” on a video.|
|IDE||1 year 24 days||Used by Google DoubleClick and stores information about how the user uses the website and any other advertisement before visiting the website. This is used to present users with ads that are relevant to them according to the user profile.|
|test_cookie||15 minutes||This cookie is set by doubleclick.net. The purpose of the cookie is to determine if the user's browser supports cookies.|
|VISITOR_INFO1_LIVE||5 months 27 days||This cookie is set by Youtube. Used to track the information of the embedded YouTube videos on a website.|
|vuid||2 years||This domain of this cookie is owned by Vimeo. This cookie is used by vimeo to collect tracking information. It sets a unique ID to embed videos to the website.|
|YSC||session||This cookies is set by Youtube and is used to track the views of embedded videos.|
|yt-remote-connected-devices||never||No description available.|
|yt-remote-device-id||never||No description available.|