cellprofiler.org
CellProfiler | Free open-source software for measuring and analyzing cell imagesCellProfiler is a free open-source software for measuring and analyzing cell images
http://www.cellprofiler.org/
CellProfiler is a free open-source software for measuring and analyzing cell images
http://www.cellprofiler.org/
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CellProfiler | Free open-source software for measuring and analyzing cell images | cellprofiler.org Reviews
https://cellprofiler.org
CellProfiler is a free open-source software for measuring and analyzing cell images
CellProfiler
cellprofiler.org
CellProfiler
http://cellprofiler.org/download.shtml
Prerequisites for CellProfiler and CellProfiler Analyst. Java installation is required prior to installing CellProfiler and/or CellProfiler Analyst. Java Runtime Environment (JRE) for 64-bit. Java Development Kit (JDK) for 64-bit. Stable (2.2.0). April 18, 2016. Currently not available, follow the install instructions in our wiki. NOTE: After launching, if no window appears, click the dock icon. Bug. Beta (2.3.0). April 18, 2016. Currently not available, follow the install instructions from our wiki.
CellProfiler
http://cellprofiler.org/downloadCPA.shtml
Download CellProfiler Analyst 2.0 DMG for Mac (r11710). Then open the DMG, copy CPAnalyst.app to your Applications folder). Download CellProfiler Analyst 2.0 for Windows (r11710). Run the EXE and follow the prompts). CPAnalyst cannot run without data to analyze. Example data and accompanying images for use with CPAnalyst 2.0 are available here. Manual for CPA 2.0. Manual for CPA 1.0.
CellProfiler example pipelines and utlities
http://cellprofiler.org/examples.shtml
The best way to learn how to use CellProfiler and CellProfiler Analyst is to download our examples and try it out! CellProfiler example images and pipelines. Jump to CellProfiler Analyst example. How do I get started? Download example images along with pipelines so you can get immediate hands-on experience in using CellProfiler. Download the example images and pipeline from the list below and run it in CellProfiler to see how it works. Try the pipeline on your own images. Pipelines using the WormToolbox.
CellProfiler
http://cellprofiler.org/about.shtml
Descriptions of the CellProfiler project can be found on the Press. The CellProfiler project is based at the Broad Institute Imaging Platform. It was started by Anne E. Carpenter. And Thouis (Ray) Jones. In the laboratories of David M. Sabatini. At the Whitehead Institute for Biomedical Research. The Broad Institute Imaging Platform is available for non-profit consulting on challenging image analysis and data mining projects. Learn more and contact us via the Carpenter lab website. Merck/MIT Computationa...
CellProfiler
http://cellprofiler.org/press.shtml
Impact of CellProfiler on human health. Publications, videos, articles, and other press. Our own descriptions of our work. Descriptions of our work. 2015: Anne Carpenter's keynote speech on high content morphology profiling at King's College of London in September 2015 [ Link to YouTube. 2015: "Ask the Expert" article featuring Anne Carpenter in Lab Manager [ Link to Lab Manager article. 2015: Article about CellProfiler and interview with Anne Carpenter in GEN magazine [ Link to GEN magazine article.
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Links - MIC - Microscopy Imaging Center
http://www.mic.unibe.ch/links.php
Adolphe Merkle Institute, University of Fribourg. Basics of Light Microscopy and Imaging. Kindly provided by Imaging and Microscopy, GIT Verlag). Carl Zeiss Microscopy campus. Discussion forum on (confocal) microscopy. Filters, fluorophores, light sources, and detectors. Freeware image processing software in Java. Image processing package based on ImageJ. Open source image analysis for large datasets. The European Light Microscopy Initiative. Imaging Facilities in Switzerland.
Cool Links
http://www.youi-research.com/support/links
Microscopy Blogs and Info. Austin’s Imaging Blog. Austin Blanco is a terrific resource for news, opinions, and information about advanced microscopy applications. Check out the Imaging Presentations on his Tutorials page for a ton of practical advice about configuring an advanced research microscope. An online magazine with tutorial articles written by and for researchers in the biological sciences. Very useful section on microscopy and imaging. Polished, professional, and free. Youi Research, Inc.
OICE: Useful Information & Links
http://www.oice.fau.de/useful-information-links.shtml
Optical Imaging Centre Erlangen. Useful Information and Links. Sie befinden sich hier:. Useful Information and Links. Zu den allgemeinen Informationen springen. User access to OICE. Useful Information and Links. Here is an easy to use Nyquist online. Essential software package for de-convolution and 3D reconstruction. LAS fully licensed off-line workstation. Links to useful resources for the interested microscopist:. Fiji Is Just Image. Fiji compares to ImageJ as Ubuntu compares to Linux. ΜManager is a s...
Decoupling · The OME Blog
http://blog.openmicroscopy.org/future-plans/community/2015/07/30/decoupling
Decoupling - The OME Blog. OME 2016. CC by 3.0. Because metadata is worth a thousand pictures. We are in the process of getting rid of submodules and separating our code into smaller repositories. Why? And why should developers and users care? The OME development workflow has been following a single, integrated approach for the last couple of years. This means that all components of the OME stack, including OMERO. As of OMERO 5.1.3, Bio-Formats is now treated as any other dependency of OMERO, lik...And O...
OICE: Useful Information & Links
http://www.oice.uni-erlangen.de/useful-information-links.shtml
Optical Imaging Centre Erlangen. Useful Information and Links. Sie befinden sich hier:. Useful Information and Links. Zu den allgemeinen Informationen springen. User access to OICE. Useful Information and Links. Here is an easy to use Nyquist online. Essential software package for de-convolution and 3D reconstruction. LAS fully licensed off-line workstation. Links to useful resources for the interested microscopist:. Fiji Is Just Image. Fiji compares to ImageJ as Ubuntu compares to Linux. ΜManager is a s...
Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning
http://www.pnas.org/content/106/6/1826.long
Keyword, Author, or DOI. Skip to main page content. Special collections highlighting noteworthy articles. Biophysics and Computational Biology. Earth, Atmospheric, and Planetary Sciences. Psychological and Cognitive Sciences. Highlights from Early Edition. Vol 106 no. 6. Thouis R. Jones. Scoring diverse cellular morphologies in image-based screens with iterative feedback and machine learning. Thouis R. Jones. Anne E. Carpenter. Michael R. Lamprecht. Serena J. Silver. Jennifer K. Grenier. David E. Root.
start [NIC Wiki]
http://nic.ucsf.edu/dokuwiki
Nikon Imaging Center at UCSF / QB3 Wiki. This wiki will be used for general information about microscopy and microscopy-related science and technology that may be of interest to both the UCSF community and the broader microscopy community. If you would like to contribute to the wiki, please email kurt.thorn@ucsf.edu to get an account (we have disabled signups due to spam). Nikon Imaging Center Microscopes. Other equipment and objectives. Deconvolution Workstation 1 (older). Accessing the NIC Server.
OMEGA Project Main/Resources
http://omega.umassmed.edu/index.php/Main/Resources
Open Microscopy Environment inteGrated Analysis. OMEGA project code repository. Partners and related websites. At Umass Medical School. At the Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG) in Dresden. The page of the OMEGA-SyBIT collaboration that was instrumental in producing the OMEGA prototype. Hunter Laboratory at Emory Vaccine Center. Istituto Cantonale di Microbiologia (ICM). Tracking algorithms and software tools. Mosaic Suite for ImageJ and Fiji. Fiji is just ImageJ.
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CellProfiler cell image analysis software
Is free open-source software designed to enable biologists without training in computer vision or programming to quantitatively measure phenotypes from thousands of images automatically. See our papers on analyzing cell images. Is free open-source software for exploring and analyzing large, high-dimensional image-derived data. It includes machine learning tools for identifying complex and subtle phenotypes. See our papers on data visualization. About CellProfiler and CellProfiler Analyst. Our CellProfile...
CellProfiler | Free open-source software for measuring and analyzing cell images
An example CellProfiler pipeline, a series of image-processing modules. The settings to measure the phenotypes of interest in your images. Images automatically - even millions. Your data to a spreadsheet or database. Your data and classify complex or subtle phenotypes using machine learning in CellProfiler Analyst.
The medicine of cell progenitors | a discussion about cell therapy, a medicine for now and the future
The medicine of cell progenitors. A discussion about cell therapy, a medicine for now and the future. Chalk Talk on What blood Is. This is a video that describes the very basic components of blood from Khan Academy. A worthwhile first primer for what blood is, and a plug for a wonderful resource. What’s inside of blood? Spin down your blood and find out what it’s made up of. Rishi is a pediatric infectious disease physician and works at Khan Academy. Rebirth of Regenerative Medicine. So with the desire t...
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Just another WordPress.com weblog. OpenCV cvCaptureFromAVI error in Ubuntu 9.04. Recently I have installed Ubuntu Jaunty (v 9.04). I have developed some projects using OpenCV api and I have realized the cvCaptureFromAVI function wasn’t working as expected. At first I thought it had some relation with the video codec, but after converting (in Windows) the video used to an uncompressed video, this was discarded. In which the problem is detailed and one really easy sollution is shown. May 24, 2009. Sometime...
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