How can I alter the values of certain rows in a column, based on a condition from another column in a dataframe, using the ifelse function? - r

Question

So I have this first dataframe (fish18) which consists of data on fish specimens, and a column "grade" that is to be filled with conditions in an ifelse function.
species BIN collectors country grade species_frequency
1 Poecilothrissa congica BOLD:AAF7519 mljs et al, Democratic Republic of the Congo NA 2
2 Acanthurus triostegus BOLD:AAA9362 Vinothkumar S, Kaleshkumar K and Rajaram R. India NA 54
3 Pseudogramma polyacantha BOLD:AAC5137 Allan D. Connell South Africa NA 15
4 Pomadasys commersonnii BOLD:AAD1338 Allan D. Connell South Africa NA 12
5 Secutor insidiator BOLD:AAB2487 Allan D. Connell South Africa NA 18
6 Sebastes macdonaldi BOLD:AAJ7419 Merit McCrea United States NA 3
BIN_per_species collector_per_species countries_per_species species_per_bin
1 2 1 1 1
2 1 21 15 1
3 3 6 6 1
4 1 2 1 1
5 4 5 4 2
6 1 1 1 1
And after filling the grade column I have something like this (fish19)
species BIN collectors country grade species_frequency
1 Poecilothrissa congica BOLD:AAF7519 mljs et al, Democratic Republic of the Congo D 2
2 Acanthurus triostegus BOLD:AAA9362 Vinothkumar S, Kaleshkumar K and Rajaram R. India A 54
3 Pseudogramma polyacantha BOLD:AAC5137 Allan D. Connell South Africa C 15
4 Pomadasys commersonnii BOLD:AAD1338 Allan D. Connell South Africa A 12
5 Secutor insidiator BOLD:AAB2487 Allan D. Connell South Africa E 18
6 Sebastes macdonaldi BOLD:AAJ7419 Merit McCrea United States B 3
BIN_per_species collector_per_species countries_per_species species_per_bin
1 2 1 1 1
2 1 21 15 1
3 3 6 6 1
4 1 2 1 1
5 4 5 4 2
6 1 1 1 1
Both dataframes have many specimens belonging to the same species of fish, and the thing is that the grades are suposed to be assigned to each species for every specimen of that species. The problem I'm having is that some rows belonging to the same species are having different grades, specially in the case of the grades "C" and "E". What I want to incorporate into my ifelse function is: Change from grade "C" to "E" every occurrence of the dataframe where two or more specimens belonging to the same species are assigned "C" in one row and "E" in another row. Because if one species has grade "E", every other row with that species name should also have grade "E".
So far I've tried the %in% function and just using "=="
Trying with %in%
assign_grades=function(fish18){
fish19<-fish18 %>%
mutate(grade = ifelse(species_frequency<3,"D",ifelse(BIN_per_species==1 & (collector_per_species>1 | countries_per_species>1),"A",ifelse(BIN_per_species==1 & collector_per_species==1 | countries_per_species==1,"B",ifelse(BIN_per_species>1 & species_per_bin==1,"C",ifelse(species_per_bin>1,"E",ifelse(fish19$species[fish19$grade=="E"]%in%fish19$species[fish19$grade=="C"]==TRUE,"E",NA))) ))))
assign('fish19',fish19,envir=.GlobalEnv)
}
assign_grades(fish18)
Trying with "=="
assign_grades=function(fish18){
fish19<-fish18 %>%
mutate(grade = ifelse(species_frequency<3,"D",ifelse(BIN_per_species==1 & (collector_per_species>1 | countries_per_species>1),"A",ifelse(BIN_per_species==1 & collector_per_species==1 | countries_per_species==1,"B",ifelse(BIN_per_species>1 & species_per_bin==1,"C",ifelse(species_per_bin>1,"E",ifelse(fish19$species[fish19$grade=="E"]==fish19$species[fish19$grade=="C"],"E",NA))) ))))
assign('fish19',fish19,envir=.GlobalEnv)
}
assign_grades(fish18)
Both these two options did not work and the output of this alteration should be that if one occurrence of a specific species name has the grade "E" assigned to it, so should all other occurences with that same species name.
I'm sorry if this was confusion but I tried to be as clear as I could, thank you in advance for any responses.

Answer 1

Kind of a long winded answer, but:
dat = data.frame('species'=c('a','b','c','a','a','b'),'grade'=c('E','E','C','C','C','D'))
dat %>% left_join(dat %>%
group_by(species) %>%
summarize(sum_e = sum(grade=='E')),by='species')
Then you could do an ifelse for sum_e>0