PhenoRipper protocols

View PhenoRipper computational protocol

PhenoRipper statistics

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Associated diseases

Associated diseases

PhenoRipper specifications


Unique identifier OMICS_22650
Name PhenoRipper
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Mac OS, Windows
Computer skills Medium
Stability Stable
Source code URL
Maintained Yes



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  • person_outline Lani Wu <>
  • person_outline Steven Altschuler <>

Additional information

Source code for MacOS is available at:

Publication for PhenoRipper

PhenoRipper in pipeline

PMCID: 5223612
PMID: 27940887
DOI: 10.1083/jcb.201610026

[…] with modular segmentation pipelines into software platforms that are publicly available and widely used (). specific examples of popular platforms include cellprofiler (), cellcognition (), and phenoripper (). outputs from these platforms typically contain hundreds to thousands of different features for each object and image. although these methods are mostly applicable to 2d images, new […]

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PhenoRipper in publications

PMCID: 4188701
PMID: 25289886
DOI: 10.1371/journal.pone.0109688

[…] time for computation, compromises the quality of the analysis., in order to compare the performance of our newly developed analysis method with other published methods, we analyzed our images with phenoripper and cellprofiler . phenoripper is a platform using a segmentation-free approach: it breaks down images into small blocks and clusters the blocks to different types according to the pixel […]

PMCID: 3972678
PMID: 24709701
DOI: 10.3390/cells2020284

[…] and quantification while providing a suite of built-in commands that handle basic image-related operations. there are also freely available software tools such as imagej [], cellprofiler [], and phenoripper [] that allow users to perform many useful image analysis tasks. at a minimum, single cell analysis entails the segmentation of cell boundaries for each image frame acquired., […]

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PhenoRipper institution(s)
Green Center for Systems Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA; Department of Pharmacology, University of Texas Southwestern Medical Center, Dallas, TX, USA
PhenoRipper funding source(s)
Supported by the National Institute of Health grants R01 GM085442, R01 GM081549, and the Welch Foundation I-1619 and I-1644.

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