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Quimp specifications


Unique identifier OMICS_06580
Name Quimp
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java, MATLAB
Computer skills Medium
Version 18.02.01
Stability Stable
Maintained Yes




No version available



  • person_outline Till Bretschneider <>

Publications for Quimp

Quimp citations


Green monomeric photosensitizing fluorescent protein for photo inducible protein inactivation and cell ablation

PMCID: 5928576
PMID: 29712573
DOI: 10.1186/s12915-018-0514-7

[…] under a 60× oil immersion objective lens na 1.4 (nikon) for 10 s. images of venus and mneptune fluorescence were taken using a 488 nm laser and a 633 nm laser. image analysis was performed using the quimp plugin [] in fiji software [] to measure the fluorescence intensity in the cytoplasm and plasma membrane of cells. the ratio increase presented in fig. was calculated […]


Nanoscale Dynamism of Actin Enables Secretory Function in Cytolytic Cells

PMCID: 5835143
PMID: 29398219
DOI: 10.1016/j.cub.2017.12.044

[…] and 100% as the maximum footprint size are presented in a., segmentation and plotting of the intensity of the lifeact fluorescence signal in the 2 μm wide outer rim of the cell was obtained using quimp plugin [] for fiji (v17.04.04)., kymographs analyzing the fluorescent signal over time were prepared using the reslice tool in fiji or using the kymographclear toolbox for fiji [] […]


STRIP1, a core component of STRIPAK complexes, is essential for normal mesoderm migration in the mouse embryo

PMCID: 5754794
PMID: 29203676
DOI: 10.1073/pnas.1713535114

[…] dfc 450c camera. the cell area and circularity measurements were performed using imagej. the total cortical actin (4 µm from the cell edge) normalized to cytosolic actin was quantified using the quimp (version 17.06.02) plug-in in imagej. the number and area of focal adhesions were based on paxillin staining and quantified as described ()., for the analyses of cellular protrusions, the four […]


Image based modeling of bleb site selection

PMCID: 5532237
PMID: 28751725
DOI: 10.1038/s41598-017-06875-9

[…] cells express an f-actin marker, abd-gfp, but since the blebbed membrane is initially devoid of actin, fluorescent rhodamine dextran was added to the agarose gel to act as a negative stain. we use quimp segmentation software to determine cell membrane coordinates from the fluorescence images (fig. ).figure 1 , the basic framework of the model is depicted in fig.  with the cell membrane (blue) […]


Coupled excitable Ras and F actin activation mediates spontaneous pseudopod formation and directed cell movement

PMCID: 5385941
PMID: 28148648
DOI: 10.1091/mbc.E16-10-0733

[…] 3 s–1 (; ). movies of cells coexpressing rbd-raf-gfp and lifeact-rfp from one plasmid were recorded on a confocal microscope at 1.18 s/frame. the extension of a new pseudopod was determined using quimp3 as described (). this provided the first frame (t0) and starting position at the cell boundary of a new protrusion. a line scan (width 660 nm) was drawn perpendicular to the cell surface […]


Method to study cell migration under uniaxial compression

PMCID: 5349787
PMID: 28122819
DOI: 10.1091/mbc.E16-08-0575

[…] numbers of blebs and pseudopods formed by a cell were counted, and the ratio of blebs and total projections was calculated., the speed of cells was calculated by automated tracking using quimp plug-in in imagej (). the centroid of cells was tracked at every frame of the movie to calculate the total distance covered by the cell. it was then divided by total time to calculate the speed […]

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Quimp institution(s)
Department of Computer Science & Zeeman Institute, University of Warwick, Coventry, UK
Quimp funding source(s)
Supported by BBSRC (BB/M01150X/1).

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