Wandell Lab

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== [[CNI Inaugural Event Speaker Slide Upload Page]]  ==
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These web pages describes the Magnetic Resonance Imaging and Image Systems Engineering activities in the Wandell lab.
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== <br> ==
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We perform our MRI measurements at  [http://cni.stanford.edu/ Stanford's Center for Cognitive and Neurobiological Imaging] (CNI).
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We work on Image Systems Engineering through the support of [http://scien.stanford.edu Stanford's Center for Image Systems Engineering] (SCIEN).
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= MRI Research =
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== MR Software  ==
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For the last decade we have shared software from our lab freely. An overview of all the software, and links to software and test data downloads, are in [[Software]]. There are large wiki sections describing distinct software components for
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General purpose software
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*[[Anatomical Methods|Anatomical methods]]
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*[[MrVista|Functional imaging]]
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*[[MrDiffusion|Diffusion imaging]]
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*[[MrFlatMesh|2D-Flattening]] and [[Mesh|3D-Visualization ]]
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*[[Stimulus|Stimulus generation ]]
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Specific methods
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*[[Retinotopy Tutorial|Visual field map measurement]]
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*[[PRF Model|Population receptive fields]]
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*[[ConTrack|Fiber Tracking]]
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*[[Tensor Statistics]]
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*[[AFQ | Automated Fiber Quantification]]
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*[[LiFE | Linear Fascicle Evaluation]]
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To add (pointers to the work with Aviv, Franco, Hiromasa and Ariel): qMRI, ET
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== Reproducible Research ==
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*[http://post.stanford.edu Project on Scientific Transparency]
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*[http://flywheel.io Flywheel:  A commercial venture to support reproducible research]
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== Local interest  ==
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*Manual pages specific to our lab, and not of general interest, are [[Administrative]], and [[Vision Lunch]].
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*[[White papers|lab white papers and historical notes of interest]]
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*[[Computer list]]
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= Image Systems Engineering Research =
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The work here is done in collaboration with members of [http://scien.stanford.edu Stanford's Center for Image Systems Engineering] (SCIEN).
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== Jupyter calculations ==
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Many of the Image Systems Simulation calculations are performed using either ISET or ISETBIO.  You can run some demonstration scripts with this software at our [[ISETBIO Jupyter]] hub site. 
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== Current projects  ==
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*[[L3 Algorithm (Haomiao Jiang, Qiyuan Tian]] - Local, linear learned - Automatic image process pipeline learning for arbitrary CFAs
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*[[ISET-Depth|Scene 3D and CISET (Andy Lin, Trisha Lian)]]
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*[[Colorblind Metric|Metric, Simulations, Experiments for Colorblind (Haomiao Jiang)]]<br>
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*[http://computational-eye-brain.org Computational Eye Brain], [https://github.com/isetbio/isetbio Image systems engineering toolbox for biology], [https://github.com/isetbio/isetbio/wiki ISETBIO wiki page]
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== Related SCIEN projects  ==
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*[[ISET]]
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*[[ICP|Integrated Color Pixel]]
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*[[SCIELAB|Spatial CIELAB]]
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*[http://white.stanford.edu/pdcwiki/index.php/CtToolBox ctToolbox]
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*[[Display Simulation]]
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*[[Misprint|Misprint calculation]] - Tools for rapid misprint identification
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*[[Demosaicking and Denoising]] - Software and image quality analysis
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*[[Pixel Binning]] - Increased sensitivity, lower bandwidth
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*[[ClearType Experiments]] - Preference judgments
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*[[Learning from Cone Samples|ClearType Experiment]] - SVM on cone sampled images
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*[http://white.stanford.edu/pdcwiki/index.php/CameraIQ Camera Image Quality Metrics]- Camera Image Quality Metrics
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*[[Reflectance and Illuminant Estimation]] - New ideas about these old problems
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== Image databases and related  ==
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*[http://scarlet.stanford.edu/validation Local Data Sets]
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Curated list of image databases
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*[http://visionscience.com/vsImages.html Vision Science page]
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Image databases
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*[http://scarlet.stanford.edu/validation/SCIEN SCIEN data for ISET and ISETBIO] See [[SCIEN data]] for a description of the repository.
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*[http://stefan.winkler.net/resources.html Image quality database from Winkler]
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*[http://www.cvc.uab.es/color_calibration/ Color calibration data (Spain)]
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*[http://tofu.psych.upenn.edu/~upennidb/ Penn image database]
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*[http://www.cps.utexas.edu/natural_scenes/ UT Austin Nikon image database]
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*[http://homepages.inf.ed.ac.uk/jbednar/stimuli/ Face stimuli database] see reference [http://dx.doi.org/10.1016/j.visres.2011.07.014 Vision Research paper by Bednar]
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Hyperspectral databases
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*[http://www.cvc.uab.es/color_calibration/Bristol_Hyper/ Bristol hyperspectral database]
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*[http://vision.seas.harvard.edu/hyperspec/ Harvard hyperspectral database]
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*[http://color.psych.upenn.edu/hyperspectral/ Brainard lab]
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Deprecated
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*[http://www-isl.stanford.edu/~abbas/group/imaging.shtml Programmable digital camera (PDC) project]

Latest revision as of 16:47, 11 January 2016

These web pages describes the Magnetic Resonance Imaging and Image Systems Engineering activities in the Wandell lab.

We perform our MRI measurements at Stanford's Center for Cognitive and Neurobiological Imaging (CNI).

We work on Image Systems Engineering through the support of Stanford's Center for Image Systems Engineering (SCIEN).

Contents

[edit] MRI Research

[edit] MR Software

For the last decade we have shared software from our lab freely. An overview of all the software, and links to software and test data downloads, are in Software. There are large wiki sections describing distinct software components for

General purpose software

Specific methods

To add (pointers to the work with Aviv, Franco, Hiromasa and Ariel): qMRI, ET

[edit] Reproducible Research

[edit] Local interest

[edit] Image Systems Engineering Research

The work here is done in collaboration with members of Stanford's Center for Image Systems Engineering (SCIEN).

[edit] Jupyter calculations

Many of the Image Systems Simulation calculations are performed using either ISET or ISETBIO. You can run some demonstration scripts with this software at our ISETBIO Jupyter hub site.

[edit] Current projects

[edit] Related SCIEN projects

[edit] Image databases and related

Curated list of image databases

Image databases

Hyperspectral databases

Deprecated

Personal tools