Protocols

ClearVolume specifications

Information


Unique identifier OMICS_25608
Name ClearVolume
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 1.3.20
Stability Stable
Requirements
ImageJ
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Loic Royer

Publication for ClearVolume

ClearVolume citations

 (2)
library_books

3D correlative light and electron microscopy of cultured cells using serial blockface scanning electron microscopy

2017
PMCID: 5394779
PMID: 27445312
DOI: 10.1242/jcs.188433

[…] tesy of Albert Cardona, Howard Hughes Medical Institute (HHMI) at the Janelia Research Campus, VA] and imported into Amira for visualisation. For 3D rendering of the entotic cell dataset, we used the ClearVolume plugin in Fiji (http://fiji.sc/ClearVolume) (). The SBF-SEM image was inverted and the Pt signal subtracted to aid visualisation in 3D. […]

call_split

A tunable refractive index matching medium for live imaging cells, tissues and model organisms

2017
eLife
PMCID: 5582871
PMID: 28708059
DOI: 10.7554/eLife.27240.022
call_split See protocol

[…] Images were processed and analyzed with Fiji (). 3D views were rendered with ClearVolume ().¬†Dynamic ranges, signal detection thresholds and object detection parameters were identically set when comparisons between refractive index matched and control conditions were made. For […]

ClearVolume institution(s)
Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany; Center for Systems Biology Dresden, Dresden, Germany; Faculty of Computer Science, Technische Universität Dresden, Dresden, Germany
ClearVolume funding source(s)
Supported by the German Federal Ministry of Research and Education (BMBF) under the funding code 031A099.

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