bioc-issue-bot
commented
3 years ago Hi @mcneilllucy
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: synapsis
Type: Package
Title: An R package to automate the analysis of double-strand break repair during meiosis
Version: 0.99.0
Authors@R:
c(person(given = "Lucy",
family = "McNeill",
role = c("aut", "cre", "cph"),
email = "luc.mcneill@gmail.com",
comment = c(ORCID = "0000-0003-1752-4882")),
person(given = "Wayne",
family = "Crismani",
role = c("rev", "ctb"),
comment = c(ORCID = "0000-0003-0143-8293")))
Description: 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.
biocViews: Software, SingleCell
Depends:
R (>= 4.1)
Imports: EBImage, stats, utils, graphics
License: MIT + file LICENSE
Encoding: UTF-8
RoxygenNote: 7.1.1
VignetteBuilder: knitr
Suggests:
knitr,
rmarkdown,
testthat (>= 3.0.0),
ggplot2,
tidyverse
Config/testthat/edition: 3
vjcitn
mcneilllucy
lshep
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