This is the code used to analyse the lineage tracing datasets in the paper:
CellDestiny: A RShiny application for the visualization and analysis of single-cell lineage tracing data (L. Hadj-Abed et al. 2022). Full details of the approach are given in the methods section of the paper.
The Github of the app can be found here: https://github.com/TeamPerie/CellDestiny.
A user manual with hands-on examples can be found here.
devtools::install_github("TeamPerie/CellDestiny", quiet = TRUE)
shiny, shinydashboard, shinyWidgets, shinycustomloader, gplots, ggplot2, ggtern, ggforce, ggpubr, gridExtra, plyr, dplyr, reshape2, vroom, stringr, tibble, vegan, scales, tidyr, RColorBrewer, rlang, corrplot, stats, devtools
LentiviralBarcodingData: this folder contains all of the raw data and scripts necessary to reproduce figures from panels 2-5. The folder is subdivided into a QC visualisation script and a data analysis script, within which there are scripts to create metadata for the experiment and to perform analysis and visualisation of the data
GeneTherapy: this folder contains all of the raw data and scripts necessary to reproduce figures from panels 6-8. The folder contains a data analysis script, within which there are scripts to create metadata for the experiment and to perform analysis and visualisation of the data
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
