Longitudinal intravital imaging code supplement.

This code accompanies the paper "Minimally invasive longitudinal intravital imaging of cellular dynamics in intact long bone"

Code adapted from [1]

Instructions

1. Download the above R script (SurfDimReduc.R) and data directory (dimredclean_statistics) into the same folder on your system.
2. Open the R script in RStudio and set the working directory to the same directory as the R script.
3. Install Seurat and dplyr R packages if you do not have them installed already.
4. Source the script. Typical run time on a 2022 M1 Macbook Pro: <10 seconds.

Expected output

1. Heatmaps as in Figure 5A
2. Dimension Reduction plots as in Figure 5B.

Dependencies

1. dplyr
2. Seurat

Environment Information

This code has been tested using the following:

1. dplyr version 1.0.9
2. RStudio version 2022.07.2
3. macOS Monterey v12.0
4. 2022 Apple M1 Macbook Pro

References

1. Crainiciuc G, Palomino-Segura M, Molina-Moreno M, Sicilia J, Aragones DG, Li JLY, Madurga R, Adrover JM, Aroca-Crevillén A, Martin-Salamanca S, et al: Behavioural immune landscapes of inflammation. Nature 2022, 601:415-421.