This repo contains data and analysis scripts for our Embryo Timecourse paper.
There are two types of content here: scripts to get the processed data (download), and scripts that we have used to do our analyses (analysis_scripts).
To use the download script, please ensure you have curl installed, and run the download script in the download folder. You can choose which of our datasets you would like to download while running the script.
Please note that you can now use our Bioconductor package MouseGastrulationData to access these data in a more efficient way, with processed and raw count matrices delivered directly into your R session.
Download times should also be much shorter if you use the package - and you can use e.g. loomr to save the data to an easily readable format if you want to analyse the data using python.