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 meiosisBioconductor version: Development (3.22)
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] ORCID: 0000-0003-1752-4882 , Wayne Crismani [rev, ctb] ORCID: 0000-0003-0143-8293
Maintainer: Lucy McNeill <luc.mcneill at gmail.com>
Citation (from within R, entercitation("synapsis")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("synapsis")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("synapsis")Follow Installation instructions to use this package in your R session.
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