DOI: 10.18129/B9.bioc.synapsis  

This is the development version of synapsis; for the stable release version, see synapsis.

An R package to automate the analysis of double-strand break repair during meiosis

Bioconductor version: Development (3.19)

Synapsis is a Bioconductor software package for automated (unbiased and reproducible) analysis of meiotic immunofluorescence datasets. The primary functions of the software can i) identify cells in meiotic prophase that are labelled by a synaptonemal complex axis or central element protein, ii) isolate individual synaptonemal complexes and measure their physical length, iii) quantify foci and co-localise them with synaptonemal complexes, iv) measure interference between synaptonemal complex-associated foci. The software has applications that extend to multiple species and to the analysis of other proteins that label meiotic prophase chromosomes. The software converts meiotic immunofluorescence images into R data frames that are compatible with machine learning methods. Given a set of microscopy images of meiotic spread slides, synapsis crops images around individual single cells, counts colocalising foci on strands on a per cell basis, and measures the distance between foci on any given strand.

Author: Lucy McNeill [aut, cre, cph] , Wayne Crismani [rev, ctb]

Maintainer: Lucy McNeill <luc.mcneill at>

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biocViews SingleCell, Software
Version 1.9.0
In Bioconductor since BioC 3.14 (R-4.1) (2 years)
License MIT + file LICENSE
Depends R (>= 4.1)
Imports EBImage, stats, utils, graphics
Suggests knitr, rmarkdown, testthat (>= 3.0.0), ggplot2, tidyverse, BiocStyle
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