Quantitative Fate Mapping (QFM) via retrospective lineage barcodes

To install:

if (!require("devtools"))
  install.packages("devtools")

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# install dependencies from Bioconductor
BiocManager::install("ComplexHeatmap")

devtools::install_github("Kalhor-Lab/QFM")

Tutorial for fate map reconstruction:

https://kalhor-lab.github.io/QFM/articles/basic_tutorial.html

Tutorial for simulating cell phylogeny and lineage barcodes:

https://kalhor-lab.github.io/QFM/articles/simulate_phylogeny_and_barcodes.html

To reproduce results in manuscript: Check 'analysis/' folder.

Data from the manuscript can be found at:

Report bugs and provide suggestions by sending email to:

Author and maintainer: Weixiang Fang ([email protected])

Or open a new issue on this Github page

Corresponding authors: Reza Kalhor, Hongkai Ji

Citation

Fang, Weixiang, et al. "Quantitative fate mapping: A general framework for analyzing progenitor state dynamics via retrospective lineage barcoding." Cell 185.24 (2022): 4604-4620.