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Spectral Unmixing Plugins specifications


Unique identifier OMICS_25927
Name Spectral Unmixing Plugins
Alternative name Spectral Unmixing
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Windows
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes




No version available


  • person_outline Joachim Walter

Additional information


Spectral Unmixing Plugins citations


Diversity of innate immune cell subsets across spatial and temporal scales in an EAE mouse model

Sci Rep
PMCID: 5865173
PMID: 29572472
DOI: 10.1038/s41598-018-22872-y
call_split See protocol

[…] Images were analyzed using ZEN 2.1 (Zeiss), Matlab and ImageJ software. Analysis was performed on raw data, all presented images are pseudo-colored and contrast enhanced for clarity. Spectral unmixing of each channel was performed using ZEN 2.1 software (Zeiss). Home made Matlab programs were used to register image stacks to cancel out residual drifts due to animal breathing. For […]


A Pre Clinical Assessment of the Pan ERBB Inhibitor Dacomitinib in Pediatric and Adult Brain Tumors

PMCID: 5916087
PMID: 29574250
DOI: 10.1016/j.neo.2018.02.004
call_split See protocol

[…] tection with an Elite ABC kit and NovaRED peroxidase substrate, then counterstained with Gill’s hematoxylin (all from Vector Laboratories). Ki67- and CC3-positive cells were quantified using a Nuance spectral unmixing camera and InForm Tissue Finder software (Perkin Elmer). Quantification of phosphorylated and total ErbB4 was performed using particle analysis in ImageJ . […]


Imaging and Spectroscopy of Natural Fluorophores in Pine Needles

PMCID: 5874599
PMID: 29393922
DOI: 10.3390/plants7010010
call_split See protocol

[…] ormed using three replicates which were found to be highly repeatable. Differences between spectra were determined using a χ2 test [] (ns = non-significant, * = p < 0.05, ** p < 0.01, *** p < 0.001). Spectral unmixing was performed using the Poisson NMR application in ImageJ software (Bethesda, MD, USA) [].Some fresh needle sections were treated with phloroglucinol to localize lignin. A 2% solutio […]


An R CaMP1.07 reporter mouse for cell type specific expression of a sensitive red fluorescent calcium indicator

PLoS One
PMCID: 5480891
PMID: 28640817
DOI: 10.1371/journal.pone.0179460
call_split See protocol

[…] traces with SNR above this threshold [].Linear unmixing of the emission signals collected via a green (Brightline Basic 535/22) and a red (Chroma ET 605/70 M) emission filter was performed using the Spectral Unmixing plugin for ImageJ (Walter, J.; see https://imagej.nih.gov/ij/plugins/spectral-unmixing.html). […]


Quantitative 3D analysis of complex single border cell behaviors in coordinated collective cell migration

Nat Commun
PMCID: 5382290
PMID: 28374738
DOI: 10.1038/ncomms14905
call_split See protocol

[…] m), Red 2 (561 nm Laser, collect emission 620–790 nm) and transmission image (DIC). tdTomato and dsRed signals were unmixed using a linear unmixing approach. This was implemented using ImageJ and the Spectral Unmixing plugin written by Joachim Walther. The egg chamber drifting was corrected using the method in ref. . For two-marker videos, red 1 and red 2 channels were combined for RFP signal. The […]


Reduced cell cohesiveness of outgrowths from eccrine sweat glands delays wound closure in elderly skin

Aging Cell
PMCID: 5013029
PMID: 27184009
DOI: 10.1111/acel.12493
call_split See protocol

[…] n at room temperature. Positive fluorescent staining was pseudocolored in red and DAPI nuclear counter staining in blue. Blue and red signals were separated from skin autofluorescence signal with the spectral unmixing plugin of imagej. […]

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