TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines

Dmitry Ershov; Minh-Son Phan; Joanna W Pylvänäinen; Stéphane U Rigaud; Laure Le Blanc; Arthur Charles-Orszag; James R W Conway; Romain F Laine; Nathan H Roy; Daria Bonazzi; Guillaume Duménil; Guillaume Jacquemet; Jean-Yves Tinevez

doi:10.1038/s41592-022-01507-1

TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines

Dmitry Ershov, Minh-Son Phan, Joanna W Pylvänäinen, Stéphane U Rigaud, Laure Le Blanc, Arthur Charles-Orszag, James R W Conway, Romain F Laine, Nathan H Roy, Daria Bonazzi, Guillaume Duménil, Guillaume Jacquemet, Jean-Yves Tinevez

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Abstract

TrackMate is an automated tracking software used to analyze bioimages and is distributed as a Fiji plugin. Here, we introduce a new version of TrackMate. TrackMate 7 is built to address the broad spectrum of modern challenges researchers face by integrating state-of-the-art segmentation algorithms into tracking pipelines. We illustrate qualitatively and quantitatively that these new capabilities function effectively across a wide range of bio-imaging experiments.

Original language	English
Pages (from-to)	829-832
Journal	Nature Methods
Volume	19
Issue number	7
Early online date	2 Jun 2022
DOIs	https://doi.org/10.1038/s41592-022-01507-1
Publication status	Published - Jul 2022
MoE publication type	A1 Journal article-refereed

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10.1038/s41592-022-01507-1

C. TrackMate paper revision - Maint textLicence: CC BY-ND

https://urn.fi/URN:NBN:fi-fe202301021020

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Ershov, D., Phan, M.-S., Pylvänäinen, J. W., Rigaud, S. U., Le Blanc, L., Charles-Orszag, A., Conway, J. R. W., Laine, R. F., Roy, N. H., Bonazzi, D., Duménil, G., Jacquemet, G., & Tinevez, J.-Y. (2022). TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines. Nature Methods, 19(7), 829-832. https://doi.org/10.1038/s41592-022-01507-1

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AU - Ershov, Dmitry

AU - Phan, Minh-Son

AU - Pylvänäinen, Joanna W

AU - Rigaud, Stéphane U

AU - Le Blanc, Laure

AU - Charles-Orszag, Arthur

AU - Conway, James R W

AU - Laine, Romain F

AU - Roy, Nathan H

AU - Bonazzi, Daria

AU - Duménil, Guillaume

AU - Jacquemet, Guillaume

AU - Tinevez, Jean-Yves

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AB - TrackMate is an automated tracking software used to analyze bioimages and is distributed as a Fiji plugin. Here, we introduce a new version of TrackMate. TrackMate 7 is built to address the broad spectrum of modern challenges researchers face by integrating state-of-the-art segmentation algorithms into tracking pipelines. We illustrate qualitatively and quantitatively that these new capabilities function effectively across a wide range of bio-imaging experiments.

UR - https://www.biorxiv.org/content/10.1101/2021.09.03.458852v2

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TrackMate 7: integrating state-of-the-art segmentation algorithms into tracking pipelines

Abstract

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