Mutate a SummarizedExperiment object under an data mask. Unlike a few other
dplyr implementations, all contextual evaluations of mutate() for
SummarizedExperiment are valid.
Usage
# S3 method for class 'SummarizedExperiment'
mutate(.data, ...)Examples
mutate(se_simple,
counts_1 = counts + 1,
logp_counts = log(counts_1),
# access assays context with ".assays" pronoun,
# note that assays are sliced into a list to
# fit dimensions of cols context
cols(sum = purrr::map_dbl(.assays$counts, sum)),
# access assays context "asis" with the same pronoun
# but with a "_asis" suffix.
rows(sum = rowSums(.assays_asis$counts))
)
#> # A SummarizedExperiment-tibble Abstraction: 5 × 4
#> .features .samples | counts logcounts counts_1 logp_counts | gene length
#> <chr> <chr> | <int> <dbl> <dbl> <dbl> | <chr> <int>
#> 1 row_1 col_1 | 14 2.64 15 2.71 | g1 1
#> 2 row_2 col_1 | 19 2.94 20 3.00 | g2 24
#> 3 row_3 col_1 | 16 2.77 17 2.83 | g3 60
#> 4 row_4 col_1 | 11 2.40 12 2.48 | g4 39
#> 5 row_5 col_1 | 18 2.89 19 2.94 | g5 37
#> … … … … … … … … …
#> n-4 row_1 col_4 | 9 2.20 10 2.30 | g1 1
#> n-3 row_2 col_4 | 4 1.39 5 1.61 | g2 24
#> n-2 row_3 col_4 | 20 3.00 21 3.04 | g3 60
#> n-1 row_4 col_4 | 3 1.10 4 1.39 | g4 39
#> n row_5 col_4 | 5 1.61 6 1.79 | g5 37
#> # ℹ n = 20
#> # ℹ 6 more variables: direction <chr>, sum <dbl>, `` <>, sample <chr>,
#> # condition <chr>, sum <dbl>