report_delim() reports the number of unique species partitions in delim.
Arguments
- delim
Output from any
*_tbl()(e.g. gmyc_tbl), delim_join or delim_consensus.- verbose
Logical. If TRUE, returns a message and a tabulated summary of
delim.
Value
an object of class tbl_df].
Details
For each column in delim, report_delim() will calculate the
number of unique partitions and print them to Console. If delim is an output from *_tbl(),
report_delim() will get unique species partitions using vec_unique_count.
If delim is an output from delim_join or delim_consensus, values are summarized by using
n_distinct with na.rm = TRUE. This is to prevent any columns with
NA values to be interpreted as species partitions.
Examples
# report geophagus delimitations
report_delim(geophagus_delims)
#> ℹ Joined delimitations have a total of 43 unique species partitions.
#> ℹ Check below the number of species partitions per method:
#>
#>
#> |method | partitions|
#> |:------|----------:|
#> |gmyc | 21|
#> |locmin | 21|
#> |abgd | 19|
#> |bgmyc | 18|
#> |ptp | 17|
#> |morph | 16|
#> |asap | 14|
#> |mptp | 11|
#> # A tibble: 137 × 9
#> labels abgd asap bgmyc gmyc locmin morph mptp ptp
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 MZ504301.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 2 MZ504318.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 3 MZ504341.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 4 MZ504337.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 5 MZ504342.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 6 MZ504304.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 7 MZ504332.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 8 MZ504343.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 9 MZ504315.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> 10 MZ504345.1 sp1 sp20 sp1 sp1 sp1 sp37 sp38 sp1
#> # ℹ 127 more rows