Immune subset definitions resolvable from a given marker panel

Proposes the subsets the supplied markers can actually define, in the same format as default_population_spec(): a named list of populations, each a list of marker -> direction requirements.

Usage

immune_subset_spec(markers, parent = "CD45")

Arguments

markers

Character vector of marker names present in the panel.

parent

Marker gating the parent population, added to every definition so subsets sit inside the same parent as the lineages. NULL to omit.

Value

Named list of population definitions; empty when the panel resolves none.

Examples

immune_subset_spec(c("CD3", "CD4", "CD8", "CD38", "HLA-DR"))
#> $`CD4 T cells`
#> $`CD4 T cells`$CD3
#> [1] "above"
#> 
#> $`CD4 T cells`$CD4
#> [1] "above"
#> 
#> $`CD4 T cells`$CD8
#> [1] "below"
#> 
#> 
#> $`CD8 T cells`
#> $`CD8 T cells`$CD3
#> [1] "above"
#> 
#> $`CD8 T cells`$CD8
#> [1] "above"
#> 
#> $`CD8 T cells`$CD4
#> [1] "below"
#> 
#> 
#> $`T cells`
#> $`T cells`$CD3
#> [1] "above"
#> 
#> 
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`$CD3
#> [1] "above"
#> 
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`$CD4
#> [1] "above"
#> 
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`$CD8
#> [1] "below"
#> 
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`$CD38
#> [1] "above"
#> 
#> $`CD4 T cells CD38+ HLA-DR+ (activated)`$`HLA-DR`
#> [1] "above"
#> 
#> 
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`$CD3
#> [1] "above"
#> 
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`$CD8
#> [1] "above"
#> 
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`$CD4
#> [1] "below"
#> 
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`$CD38
#> [1] "above"
#> 
#> $`CD8 T cells CD38+ HLA-DR+ (activated)`$`HLA-DR`
#> [1] "above"
#> 
#>