README.md

# synapsis

## Project overview

synapsis is an R package for analysing fluorescent microscopy images.

## Contributors

Lucy McNeill, St Vincent's Institute of Medical Research

Wayne Crismani, St Vincent's Institute of Medical Research and the University of Melbourne

## Compatibility

## Using synapsis

synapsis has four main functions. These are:

- auto_crop

- get_pachytene

- count_foci

- measure_distances

We summarise them in the following subsections:

### auto_crop

input:

output:

![cropping](resources/figures/cropping_procedure.png)

### get_pachytene

input:

output:

### count_foci

input:

output:

### measure_distances

input:

output:

## Analysis

## Project organisation and management

Please issue bug reports through GitLab.


## Acknowledgements

This project is a [workflowr][] project, where we make use of a [project template][] created by Davis McCarthy.

[workflowr]: https://github.com/jdblischak/workflowr

[project template]: https://gitlab.svi.edu.au/biocellgen-public/aaaa_2019_project-template