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dglen's Home

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Home page area that contains the items created and collected by dglen
dglen's Home Home page for dglen
Current and past projects for Daniel Glen
dglen's Home Daniel Glen
 
dglen's Home Diffusion Tensor Estimation Method
PDF presentation of our method to estimate the diffusion tensor given April 19, 2005
dglen's Home DTI fiber volume
Rotating DTI fiber volume
dglen's Home DTI fibers spin up and down
DTI fibers
dglen's Home Original DWI B0 data
 
dglen's Home Anisotropic smoothed B0 data
 
dglen's Home Original DWI B0 data
 
dglen's Home Anisotropically Smoothed B0 data
 
dglen's Home Anisotropic smoothing of DWI data
 
dglen's Home Vascular Rendering
Data made with eroded automask and anisotropically smoothed. It was then reversed, thresholded in overlay and placed over original automasked volume.
dglen's Home Funniest NIMH Poem Contest 2006
This poem received second place in the very prestigious Funniest NIMH Poem Contest. For this, Daniel Glen was honored with an "odd" frame / suggestion box. (He was robbed, I tell ya, robbed...)
dglen's Home Vascular Rendering 2
 
dglen's Home Integration of AFNI with DTI-Query
Using DTI-Query with data from AFNI
dglen's Home Compiling DTI-Query
How to build DTI-Query for various platforms
dglen's Home DTI Query on Mac Screenshot
 
dglen's Home DTI Query Binary Files
DTI-Query binary files in tgz format. Extract with tar xzvf dtiqueryaaaa.tgz in the directory for the original files.
dglen's Home DTI-Query tractography available
DTI-Query - the DTI fiber tractography program by David Akers and Anthony Sherbondy at Stanford is available for AFNI users
dglen's Home Dealing with Obliquity in AFNI
Dealing with obliquely acquired data - commands and concepts
dglen's Home Oblique to Cardinal transformed EPI
 
dglen's Home Cardinal to Oblique transformed anatomical data
 
dglen's Home Obliquity in AFNI
How to deal with oblique datasets in AFNI
dglen's Home Unaligned EPI data over anat edges
Underlay edge detect and color. Overlay monochrome green color scale with auto-range off.
dglen's Home Aligned EPI data over anat edges
Underlay anat - edge detect and color. Overlay in monochrome green colorscale.
dglen's Home Aligned EPI data over anat edges
 
dglen's Home Unaligned EPI data over anat edges - Green
 
dglen's Home Aligned EPI data over anat - pre and post alignment
To create this image, the underlay is set to edge detect in display menu, Color, Swap. Right-click color bar and set Zero color to black. For overlay, right-click overlay color bar, and select a monochrome scale like this gray_circle or one like red_monochrome or green_monochrome. With sub-bricks for overlay and threshold set to the same epi dataset sub-brick, set lower threshold or "auto threshold" on overlay. Turn off auto-range and set range to useful maximum.
dglen's Home Compiled Matlab Applications in AFNI
Several Matlab applications are available as stand-alone applications
dglen's Home McRetroTS - Matlab compiled version of retroTS.m
Use McRetroTS for cardio-respiratory regression with fMRI data as standalone application without Matlab
dglen's Home Atlases in AFNI - framework
How AFNI handles atlases, templates, spaces and transformations
dglen's Home How to make an atlas
This document describes the steps to add a new atlas to AFNI
dglen's Home How to make an atlas to be used with AFNI
How to add a new atlas to AFNI
dglen's Home Alignment of EPI data across two sessions
The special case of aligning EPI data across two sessions without bias toward either session
 

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