CellSpecks specifications


Unique identifier OMICS_30531
Name CellSpecks
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some video stacks or individual images.
Input format JPG,TIFF
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Angelo Demuro
  • person_outline Ghanim Ullah

Publication for CellSpecks

CellSpecks citations


Analyzing and Modeling the Kinetics of Amyloid Beta Pores Associated with Alzheimer’s Disease Pathology

PLoS One
PMCID: 4562663
PMID: 26348728
DOI: 10.1371/journal.pone.0137357

[…] ed pseudo-ratio stack in which each pixel represents localized differences in fluorescence relative to the spatially averaged baseline fluorescence (ΔF/F0). A previously developed Java-based program, CellSpecks was used to identify sites of pore activity, and traces of fluorescence versus time such as those in (top panel) were obtained as the maximum pixel intensity within fixed 3 × 3 pixel (~1 × […]


Single channel Ca2+ imaging implicates Aβ1–42 amyloid pores in Alzheimer’s disease pathology

PMCID: 3206345
PMID: 22024165
DOI: 10.1083/jcb.201104133

[…] analyze population data by visual inspection, and we did not find existing software, including GMimPro and SparkMaster (; ), adequate for our purposes. Accordingly, we developed a Java-based program (CellSpecks) to identify active sites, generate idealized traces of pore gating, and derive parameters, including mean open and closed times and open probabilities as presented in and . CellSpecks is […]

CellSpecks institution(s)
University of South Florida, FL, USA; Pacific Biosciences, USA; University of California, Irvine, CA, USA
CellSpecks funding source(s)
Supported by NIH through grants R01 AG053988 and R01 GM065830.

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