Calculate the presence/absence of KO in certain pathway.
calc_binary(tibble_ko, y_axis, data_experiment=NULL, binary=TRUE, metabolism=FALSE)
| tibble_ko | a tibble object from mapping_ko. |
|---|---|
| y_axis | a character, indicating the pathway to analyze. |
| data_experiment | optional. a data frame object containing metadata information. |
| binary | optional. a logical value, indicating whether you want to calculate presence/absence or abundance of KOs per pathway. |
| metabolism | optional. a logical value, if TRUE it will show the metabolism table. |
This function is part of a package used for the analysis of bins metabolism.
calc_binary(ko_bin_mapp, Pathway)#> # A tibble: 1,410 x 3 #> Pathway Bin_name Presence_absence #> <chr> <chr> <int> #> 1 map00010 Bin_1 1 #> 2 map00010 Bin_10 1 #> 3 map00010 Bin_113 1 #> 4 map00010 Bin_12 1 #> 5 map00010 Bin_2 1 #> 6 map00010 Bin_56 1 #> 7 map00020 Bin_1 1 #> 8 map00020 Bin_10 1 #> 9 map00020 Bin_113 1 #> 10 map00020 Bin_12 1 #> # … with 1,400 more rows