Commit 65ba67f0 authored by Lucy McNeill's avatar Lucy McNeill
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add installation to markdown

parent fb33e5a4
# synapsis
## Installing `synapsis`
`synapsis` will be available on [bioconductor](https://www.bioconductor.org). For now, please download from the [github](https://gitlab.svi.edu.au/lmcneill/synapsis)) repository using
```r
# install from gitlab
devtools::install_git('https://gitlab.svi.edu.au/lmcneill/synapsis')
```
This package depends on `EBImage` which has some external dependencies.
## Project overview
synapsis is an R package for analysing fluorescent microscopy images. In particular, its intended use is for analysing meiotic processes in mammals.
The main goal is to objectively count the number of meiotic crossovers on a per cell basis, in line with recent developments in ImageJ software. However, unlike using ImageJ, synapsis does not require a scientist to manually crop images around cells of interest in order to count "foci" (crossover sites).
Instead, synapsis identifies "good" cells in all images of a data set, crops around each per image, and then performs counting.
Instead, synapsis identifies "viable" cells in all images of a data set, crops around each per image, and then performs counting.
A single two channel image might look like the left colour image in the following figure:
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