Get the summary of an object of class phylter.
Usage
# S3 method for phylter
summary(object, ...)Arguments
- object
Object returned by function 'phylter()'.
- ...
Additional arguments affecting the summary produced.
Examples
data(carnivora)
res <- phylter(carnivora, parallel = FALSE)
#>
#> Number of Genes: 125
#> Number of Species: 53
#> --------
#> Initial score: 0.86235
#> 28 new cells to remove -> New score: 0.90272 -> OK
#> 18 new cells to remove -> New score: 0.90833 -> OK
#> 16 new cells to remove -> New score: 0.91501 -> OK
#> 18 new cells to remove -> New score: 0.92561 -> OK
#> 5 new cells to remove -> New score: 0.93404 -> OK
#> 4 new cells to remove -> New score: 0.93692 -> OK
#> 2 new cells to remove -> New score: 0.93712 -> OK
#> 1 new cells to remove -> New score: 0.94392 -> OK
#> 1 new cells to remove -> New score: 0.94417 -> OK
#> 1 new cells to remove -> New score: 0.94426 -> OK
#> => No more outliers detected -> Checking for complete gene outliers
#> => No more outliers detected -> STOPPING OPTIMIZATION
#> --------
#>
#> Total number of outliers detected: 94
#> Number of complete gene outliers : 0
#> Number of complete species outliers : 0
#>
#> Gain (concordance between matrices): 8.19%
#> Loss (data filtering): 1.42%
summary <- summary(res)
class(summary)
#> [1] "summary.phylter"