TY - UNPB
T1 - vLUME: 3D Virtual Reality for Single-molecule Localization Microscopy
AU - Spark, Alexander
AU - Kitching, Alexandre
AU - Esteban-Ferrer, Daniel
AU - Handa, Anoushka
AU - Carr, Alexander R.
AU - Needham, Lisa-Maria
AU - Ponjavic, Aleks
AU - Santos, Mafalda Da Cunha
AU - McColl, James
AU - Leterrier, Christophe
AU - Davis, Simon J.
AU - Henriques, Ricardo
AU - Lee, Steven F.
PY - 2020/1/21
Y1 - 2020/1/21
N2 - Super-Resolution (SR) Microscopy based on 3D Single-Molecule Localization Microscopy (SMLM) is now well established1,2 and its wide-spread adoption has led to the development of more than 36 software packages, dedicated to quantitative evaluation of the spatial and temporal detection of fluorophore photoswitching3. While the initial emphasis in the 3D SMLM field has clearly been on improving resolution and data quality, there is now a marked absence of 3D visualization approaches that enable the straightforward, high-fidelity exploration of this type of data. Inspired by the horological phosphorescence points that illuminate watch-faces in the dark, we present vLUME (Visualization of the Universe in a Micro Environment, pronounced ‘volume’) a free-for-academic-use immersive virtual reality-based (VR) visualization software package purposefully designed to render large 3D-SMLM data sets. vLUME enables robust visualization, segmentation and quantification of millions of fluorescence puncta from any 3D SMLM technique. vLUME has an intuitive user-interface and is compatible with all commercial VR hardware (Oculus Rift/Quest and HTC Vive, Supplementary Video 1). vLUME accelerates the analysis of highly complex 3D point-cloud data and the rapid identification of defects that are otherwise neglected in global quality metrics.
AB - Super-Resolution (SR) Microscopy based on 3D Single-Molecule Localization Microscopy (SMLM) is now well established1,2 and its wide-spread adoption has led to the development of more than 36 software packages, dedicated to quantitative evaluation of the spatial and temporal detection of fluorophore photoswitching3. While the initial emphasis in the 3D SMLM field has clearly been on improving resolution and data quality, there is now a marked absence of 3D visualization approaches that enable the straightforward, high-fidelity exploration of this type of data. Inspired by the horological phosphorescence points that illuminate watch-faces in the dark, we present vLUME (Visualization of the Universe in a Micro Environment, pronounced ‘volume’) a free-for-academic-use immersive virtual reality-based (VR) visualization software package purposefully designed to render large 3D-SMLM data sets. vLUME enables robust visualization, segmentation and quantification of millions of fluorescence puncta from any 3D SMLM technique. vLUME has an intuitive user-interface and is compatible with all commercial VR hardware (Oculus Rift/Quest and HTC Vive, Supplementary Video 1). vLUME accelerates the analysis of highly complex 3D point-cloud data and the rapid identification of defects that are otherwise neglected in global quality metrics.
UR - https://doi.org/10.1101/2020.01.20.912733
U2 - 10.1101/2020.01.20.912733
DO - 10.1101/2020.01.20.912733
M3 - Preprint
BT - vLUME: 3D Virtual Reality for Single-molecule Localization Microscopy
PB - biorxiv
ER -