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URL: https://github.com/mjin1812/SMART
Proper Citation: Semi-Manual Alignment to Reference Templates (RRID:SCR_019265)
Description: Software tool that extends WholeBrain framework in R for segmenting and registering experimental images to Allen Mouse Common Coordinate Framework (CCF). Streamlines processing of large volumetric LSFM datasets and solves issues with non-uniform morphing across anterior-posterior axis with interactive “choice game.” Accounts for duplicate cell counts in adjacent z images and presents new ways to easily parse apart and interactively visualize final mapped datasets.
Abbreviations: SMART
Resource Type: software application, data processing software, image analysis software, segmentation software, software resource
Defining Citation: DOI:10.1101/727529
Keywords: Segmenting experimental images, registering experimental images, Allen Mouse Common Coordinate Framework, data processing, experimental images
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant 2U24DK097771-09.
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