usefull-R-things

Color Pallete

see colors and numbers

library("RColorBrewer")
display.brewer.all()

View a single RColorBrewer palette by specifying its name

display.brewer.pal(n = 8, name = 'RdBu')

Hexadecimal color specification

brewer.pal(n = 8, name = "RdBu")

interactive

link here

library("colorspace")
pal <- choose_palette()

Kable:

to generate pretty tables, but only works in htmls. Does not really works when knitting to pdfs ( teh style gets messed up

pack_row <-  class_tbl %>% group_by(Phylum) %>% tally() %>% 
  mutate(end= cumsum(n),start = end-n+1) %>% 
  mutate(Phylum=as.character(Phylum))
  
  full_join(class_dt_meso,class_dt_macro, by=c("Phylum", 'Class')) %>% ungroup() %>% 
 # dplyr::select(-Phylum) %>% 
    mutate( across(everything(), ~replace_na(.x, "-"))) %>% 
  kbl(col.names = c("Phylum: Class","n","%","n","%"),
      caption = "Number of entries, n, (with percent, %) for 19 Phyla from the mesopelagic dataset groupped by organisms' class and net size (Meso and Macro)") %>% 
  kable_classic(full_width = FALSE) %>%
  add_header_above(c(" " = 1, "Meso" = 2, "Macro" = 2)) %>%
  pack_rows(pack_row$Phylum[1], pack_row$start[1], pack_row$end[1]) %>%
  pack_rows(pack_row$Phylum[2], pack_row$start[2], pack_row$end[2])%>%

Flextable

typology <- data.frame(
  col_keys = c( "Phylum",     "Class", "n_meso","freq_meso",
    "n_macro", "freq_macro"),
#  type = c("double", "double", "double",     "double", "factor"),
  what = c("Phylum","Class","Meso","Meso","Macro","Macro"),
  measure = c("Phylum","Class", "N", "%", "N", "%"),
  stringsAsFactors = FALSE )


full_join(class_dt_meso,class_dt_macro, by=c("Phylum", 'Class')) %>% ungroup() %>% 
 # dplyr::select(-Phylum) %>% 
    mutate( across(everything(), ~replace_na(.x, "-"))) %>% 
  flextable() %>% 
  set_header_df(mapping = typology, key = "col_keys" ) %>% 
  merge_h( part = "header") %>% 
  merge_v( part = "header") %>% 
  merge_v(j=c("Phylum")) %>% 
  valign(j = 1, valign = "top", part = "body") %>% 
  bold(j = 1, bold = TRUE, part = "body") %>% 
  bold(bold = TRUE, part = "header") %>% 
  set_caption("Number of entries, n, (with percent, %) for 19 Phyla from the mesopelagic dataset groupped by organisms' class and net size (Meso and Macro)") %>% 
  theme_booktabs() %>% 
  fix_border_issues(part = "all") %>% 
  autofit()