categorize_genetic_requirements

Summarizes perturbation effects to identify cell groups that are directly or indirectly lost for each perturbation, using a state transition graph.

categorize_genetic_requirements(perturb_ccm_tbl, state_graph)

Arguments

• perturb_ccm_tbl
  tibble
  A tibble of fitted genotype models, one row per perturbation, with a perturb_summary_tbl list-column (the per-cell-state loss summary).

• state_graph
  igraph
  State transition graph defining lineage relationships among cell groups.

Value

A tibble with per-perturbation lists of directly and indirectly lost cell groups.

Details

For each perturbation, cell states flagged as lost (is_lost_when_present) are classified using the graph's topology: a lost cell state with no lost parent upstream of it is direct; a lost cell state whose loss can be explained by an already-lost parent is indirect.

Examples

genetic_requirements <- categorize_genetic_requirements(perturb_ccm_tbl, muscle_state_graph@graph)