Software to accompany the manuscript "Exclusion of condensin I from the nucleus during prophase coordinates mitotic chromosome reorganization to complete sister chromatid resolution", John K. Eykelenboom, Marek Gierliński, Zuojun Yue, Tomoyuki U. Tanaka bioRxiv 2024.04.26.591320; doi: https://doi.org/10.1101/2024.04.26.591320.
We suggest using RStudio. Start in the top project directory.
The first step is to install required R packages using renv:
install.packages("renv")
renv::restore()
The Shiny app for state parsing can be run
shiny::runApp("shiny/parsing_states")
The first thing needed in the app is to load Excel file data by clicking "Load Excel files". Once this is finished, you can set parsing parameters and press "Submit" to see the results.
The report including many additional analyses can be created by running the targets pipeline.
targets::tar_make()
This will analyse data and create a report (in directory doc).