analysis/extended_experiments/README.md

In Kalhor-Lab/QFM: Quantitative Fate Mapping with ICE-FASE and Phylotime

Extended experiments testing quantitative fate mapping under a number of scenarios

1. For testing QFM with readout errors

   1. 'slurm_readout_errors.R': introduce readout errors in lineage barcodes and reconstruct with Phylotime, run on HPC
   2. 'process_readout_experiments.R': process and evaluate experiments with readout errors
   3. 'summarize_readout_experiments.R': summarize and plot results with readout errors

2. 'prolonged_commitment'.R: commitment occurs over prolonged period of time

3. 'progenitor_state_multifurcation.R': multi-furcating commitment for a progenitor state

4. 'multiple_target_time.R': collect samples at different time points

5. 'multiple_replicates.R': combine data from multiple individuals

6. 'increased_cell_death_rate.R': increased cell death rate

7. 'commitment_via_asymmetric_division.R': fate commitment via asymmetric cell division

Kalhor-Lab/QFM documentation built on Nov. 25, 2024, 10:18 p.m.