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AbsorbanceQ App for Generating Absorbance Images from Brightfield Image Captures

Published by National Institute of Standards and Technology | National Institute of Standards and Technology | Metadata Last Checked: August 02, 2025 | Last Modified: 2021-06-10 00:00:00
This page hosts the AbsorbanceQ app which generates absorbance images from brightfield image captures. Absorbance microscopy can be used to make trypan blue cell viability measurements more quantitative and traceable by measuring the moles of trypan blue in each dead cell. AbsorbanceQ was written in MATLAB and can be downloaded as a .zip file. When unzipped, the program will be installed and can run as a standalone .exe file with no dependencies beyond the operating system. This website includes images that can be downloaded to validate that AbsorbanceQ is functioning properly. References: [1] Babakhanova G, Zimmerman SM, Pierce LT, Sarkar S, Schaub NJ, Simon Jr CG (2021) Quantitative, Traceable Determination of Cell Viability Using Absorbance Microscopy, in press. [2] Babakhanova G, Zimmerman SM, Pierce LT, Sarkar S, Schaub NJ, Simon Jr CG (2021), Dataset for Absorbance Microscopy for Quantitative and Traceable Trypan Blue Cell Viability Measurement, National Institute of Standards and Technology, https://doi.org/10.18434/mds2-2347. [3] Zimmerman SM, Simon Jr CG, Babakhanova G (2021) AbsorbanceQ: An App for Generating Absorbance Images from Brightfield Images. J Res Natl Inst Stan 126:126039, https://doi.org/10.6028/jres.126.039.

Resources

18 resources available

  • DOI Access for AbsorbanceQ App for Generating Absorbance Images from Brightfield Image Captures

    FILE
    Visit Page

  • License

    .TXT FILE
    Download

  • ReadMe file

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
    Download

  • Key_Code.docx

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
    Download

  • Synthetic_Images_16bit

    APPLICATION/X-ZIP-COMPRESSED
    Download

  • Synthetic_Images_32bit

    APPLICATION/X-ZIP-COMPRESSED
    Download

  • Synthetic_Images_8bit

    APPLICATION/X-ZIP-COMPRESSED
    Download

  • This is a zip file containing brightfield images of dead cells that can be used as input into the app in order to generate absorbance images. The images are [16 bit monochrome tif files]. There are 10 cell images I, one Imax image and one Imin image.

    APPLICATION/X-ZIP-COMPRESSED
    Download

  • MyAppInstaller_mcr.zip

    APPLICATION/X-ZIP-COMPRESSED
    Download

  • Source code

    APPLICATION/VND.OPENXMLFORMATS-OFFICEDOCUMENT.WORDPROCESSINGML.DOCUMENT
    Download

  • SHA256 File for Cell_Images_16bit.zip

    TEXT/PLAIN
    Download

  • SHA256 File for Key_Code.docx

    TEXT/PLAIN
    Download

  • SHA256 File for MyAppInstaller_mcr.zip

    TEXT/PLAIN
    Download

  • SHA256 File for ReadMe file

    TEXT/PLAIN
    Download

  • SHA256 File for Source code

    TEXT/PLAIN
    Download

  • SHA256 File for Synthetic_Images_16bit

    TEXT/PLAIN
    Download

  • SHA256 File for Synthetic_Images_32bit

    TEXT/PLAIN
    Download

  • SHA256 File for Synthetic_Images_8bit

    TEXT/PLAIN
    Download

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Complete Metadata
@type dcat:Dataset
accessLevel public
accrualPeriodicity irregular
bureauCode 
                                            [
  "006:55"
]
contactPoint 
                                            {
  "fn": "Carl Simon Jr.",
  "hasEmail": "mailto:carl.simon@nist.gov"
}
description This page hosts the AbsorbanceQ app which generates absorbance images from brightfield image captures. Absorbance microscopy can be used to make trypan blue cell viability measurements more quantitative and traceable by measuring the moles of trypan blue in each dead cell. AbsorbanceQ was written in MATLAB and can be downloaded as a .zip file. When unzipped, the program will be installed and can run as a standalone .exe file with no dependencies beyond the operating system. This website includes images that can be downloaded to validate that AbsorbanceQ is functioning properly. References: [1] Babakhanova G, Zimmerman SM, Pierce LT, Sarkar S, Schaub NJ, Simon Jr CG (2021) Quantitative, Traceable Determination of Cell Viability Using Absorbance Microscopy, in press. [2] Babakhanova G, Zimmerman SM, Pierce LT, Sarkar S, Schaub NJ, Simon Jr CG (2021), Dataset for Absorbance Microscopy for Quantitative and Traceable Trypan Blue Cell Viability Measurement, National Institute of Standards and Technology, https://doi.org/10.18434/mds2-2347. [3] Zimmerman SM, Simon Jr CG, Babakhanova G (2021) AbsorbanceQ: An App for Generating Absorbance Images from Brightfield Images. J Res Natl Inst Stan 126:126039, https://doi.org/10.6028/jres.126.039.
distribution 
                                            [
  {
    "title": "DOI Access for AbsorbanceQ  App for Generating Absorbance Images from Brightfield Image Captures",
    "accessURL": "https://doi.org/10.18434/mds2-2423"
  },
  {
    "title": "License",
    "format": ".txt file",
    "mediaType": "text/plain",
    "description": "License",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/License.txt"
  },
  {
    "title": "ReadMe file",
    "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document",
    "description": "ReadMe file that explains the contents of the website.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/ReadMe.docx"
  },
  {
    "title": "Key_Code.docx",
    "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document",
    "description": "These are the key lines of functional code from the app that have been decoupled from the user interface.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Key_Code.docx"
  },
  {
    "title": "Synthetic_Images_16bit",
    "mediaType": "application/x-zip-compressed",
    "description": "This is a .zip file containing synthetic images that can be used to validate that the app works properly using [16 bit monochrome .tif files] as input images.  There are six synthetic neutral density filter images (I) (-0.1, 0.1, 0.5, 1.0, 1.5 and a striped image with four values), one synthetic Imax image and one synthetic Imin image.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_16bit.zip"
  },
  {
    "title": "Synthetic_Images_32bit",
    "mediaType": "application/x-zip-compressed",
    "description": "This is a .zip file containing synthetic images that can be used to validate that the app works properly using [32 bit floating point monochrome .tif files] as input images. There are five synthetic neutral density filter images (I) (0.1, 0.5, 1.0, 1.5 and a striped image with four values), one synthetic Imax image and one synthetic Imin image.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_32bit.zip"
  },
  {
    "title": "Synthetic_Images_8bit",
    "mediaType": "application/x-zip-compressed",
    "description": "This is a .zip file containing synthetic images that can be used to validate that the app works properly using [8 bit monochrome .tif files] as input images.  There is a synthetic neutral density filter image (I) (0.5), one synthetic Imax image and one synthetic Imin image.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_8bit.zip"
  },
  {
    "mediaType": "application/x-zip-compressed",
    "description": "This is a zip file containing brightfield images of dead cells that can be used as input into the app in order to generate absorbance images.  The images are [16 bit monochrome tif files].  There are 10 cell images I, one Imax image and one Imin image.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Cell_Images_16bit.zip"
  },
  {
    "title": "MyAppInstaller_mcr.zip",
    "mediaType": "application/x-zip-compressed",
    "description": "This is a zip file that contains a file called "MyAppInstaller_mcr.exe" that will install the AbsorbanceQ app on your computer.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/MyAppInstaller_mcr.zip"
  },
  {
    "title": "Source code",
    "mediaType": "application/vnd.openxmlformats-officedocument.wordprocessingml.document",
    "description": "This is the Matlab source code for the AbsorbanceQ app.",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Source_Code.docx"
  },
  {
    "title": "SHA256 File for Cell_Images_16bit.zip",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Cell_Images_16bit.zip.sha256"
  },
  {
    "title": "SHA256 File for Key_Code.docx",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Key_Code.docx.sha256"
  },
  {
    "title": "SHA256 File for MyAppInstaller_mcr.zip",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/MyAppInstaller_mcr.zip.sha256"
  },
  {
    "title": "SHA256 File for ReadMe file",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/ReadMe.docx.sha256"
  },
  {
    "title": "SHA256 File for Source code",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Source_Code.docx.sha256"
  },
  {
    "title": "SHA256 File for Synthetic_Images_16bit",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_16bit.zip.sha256"
  },
  {
    "title": "SHA256 File for Synthetic_Images_32bit",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_32bit.zip.sha256"
  },
  {
    "title": "SHA256 File for Synthetic_Images_8bit",
    "mediaType": "text/plain",
    "downloadURL": "https://data.nist.gov/od/ds/mds2-2423/Synthetic_Images_8bit.zip.sha256"
  }
]
identifier ark:/88434/mds2-2423
issued 2021-06-23
keyword 
                                            [
  "AbsorbanceQ",
  "absorbance imaging",
  "cell viability",
  "regenerative medicine",
  "trypan blue"
]
landingPage https://data.nist.gov/od/id/mds2-2423
language 
                                            [
  "en"
]
license https://www.nist.gov/open/license
modified 2021-06-10 00:00:00
programCode 
                                            [
  "006:045"
]
publisher 
                                            {
  "name": "National Institute of Standards and Technology",
  "@type": "org:Organization"
}
theme 
                                            [
  "Bioscience:Biomaterials",
  "Bioscience:Bioprocessing",
  "Bioscience:Cell biology",
  "Health:Cell therapies",
  "Manufacturing",
  "Manufacturing:Biomanufacturing",
  "Manufacturing:Process measurement and control"
]
title AbsorbanceQ App for Generating Absorbance Images from Brightfield Image Captures

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