Get top n markers from wilcoxauc — top

Useful summary of the most distinguishing features in each group.

top_markers(
  res,
  n = 10,
  auc_min = 0,
  pval_max = 1,
  padj_max = 1,
  pct_in_min = 0,
  pct_out_max = 100
)

Arguments

res: table returned by wilcoxauc() function.
n: number of markers to find for each.
auc_min: filter features with auc < auc_min.
pval_max: filter features with pval > pval_max.
padj_max: filter features with padj > padj_max.
pct_in_min: Minimum percent (0-100) of observations with non-zero entries in group.
pct_out_max: Maximum percent (0-100) of observations with non-zero entries out of group.

Value

table with the top n markers for each cluster.

Examples


data(exprs)
data(y)

## first, run wilcoxauc
res <- wilcoxauc(exprs, y)

## top 10 markers for each group
## filter for nominally significant (p<0.05) and over-expressed (auc>0.5)
top_markers(res, 10, auc_min = 0.5, pval_max = 0.05)
#> # A tibble: 9 × 4
#>    rank A     B     C    
#>   <int> <chr> <chr> <chr>
#> 1     1 G4    G20   G1   
#> 2     2 NA    G5    G21  
#> 3     3 NA    G15   G6   
#> 4     4 NA    G19   G16  
#> 5     5 NA    G25   G11  
#> 6     6 NA    G10   G7   
#> 7     7 NA    NA    G2   
#> 8     8 NA    NA    G17  
#> 9     9 NA    NA    G12