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Brain-map>Support>Community Tools>SHARCQ>SHARCQ
Processing, Registration, Integration

SHARCQ

SHARCQ is a group of software tools which register histological section images and cell count locations to a mouse brain atlas. Semi automated workflow and GUI for automated brain slice histology alignment, registration, and cell quantification make it possible to explore the Allen Mouse Brain Atlas, register asymmetric slice images to atlas using manual input, and analyze regions of interest data by registering locations of fluorescently labeled cells to standardized regions of Atlas.

Link to the tool

More information

  • RRID:SCR_022498
  • Software Type:data registration, data analysis
  • Modality:cell type, histology
  • Allen Resource(s) Utilized:Allen Mouse Brain Reference Atlas
  • Author(s):Kris Lauridsen, Annie Ly
  • Year Released:2022

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