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TrackPad: Software for semi-automated single-cell tracking and lineage annotation

Year: 2020
Type: software-paper
Abstract: TrackPad is an open-source, biologist-friendly, graphical user interface for tracking and annotating single-cell lineage fates from time-lapse movies. The software applies cross-correlative, template-matching (CCTM) to track each cell using transmitted or fluorescent images. Machine tracking is supervised by the investigator, who can manually annotate cell fates such as division, death, or changes in cell phenotype. Search parameters that minimise user interventions and tracking time are selected by simulating tracking using verified tracking data as a ground truth. Investigators who use this software can produce high-quality annotated cell trajectories and division pedigrees to understand how intrinsic and extrinsic factors influence cell states and fates.
Source: SoftwareX
DOI: 10.1016/j.softx.2020.100440
Authors: J.A. Cornwell, J. Li, S. Mahadevan, J.S. Draper, G.L. Joun, H. Zoellner, N.S. Asli, R.P. Harvey, R.E. Nordon
Institutions: Australian Research Council, Stem Cells Australia, National Cancer Institute, Center for Cancer Research, UNSW Sydney, The University of Sydney, Westmead Hospital, McMaster University, Victor Chang Cardiac Research Institute
Language: English
Subfield: Biophysics
Open Access status: gold
Estimated APC paid: $500
Funders: Sydney West Translational Cancer Research Centre, Stem Cells Australia, Cancer Institute NSW, Australian Dental Research Foundation, Australian Research Council, National Health and Medical Research Council
OpenAlex ID: W3010788715
Cites: 21
Cited by: 16
Related to: 10