Calculate coverage across hairpins

Source: R/expt-haircut.R

Calculate coverage across hairpins

calc_hairpin_coverage(fsce, cell_ids = NULL, activities = NULL,
  expt = "haircut", meta = "rnaseq")

Arguments

fsce

FunctionalSingleCellExperiment
cell_ids

cell ids to include in coverage calculation or category from colData in rnaseq expt
activities

vector of activites to calculate coverage over. default is all present.
expt

Data to use for calculating variable features (default is rnaseq). Must be present in names(fsce).
meta

Data to use to find cell_ids categories default is rnaseq

Examples

calc_hairpin_coverage(fsce_small)
#> # A tibble: 426 x 4
#>    cell_id   hairpin position  count
#>    <chr>     <chr>      <dbl>  <dbl>
#>  1 all_cells Abasic         1 2.61  
#>  2 all_cells Abasic        10 0.0507
#>  3 all_cells Abasic        11 0.0620
#>  4 all_cells Abasic        12 0.222 
#>  5 all_cells Abasic        13 0.162 
#>  6 all_cells Abasic        14 0.0770
#>  7 all_cells Abasic        15 0.0658
#>  8 all_cells Abasic        16 0.0583
#>  9 all_cells Abasic        17 0.120 
#> 10 all_cells Abasic        18 0.148 
#> # … with 416 more rows