ErResult_methods: accessor functions for objects of ErResult S4 class, outputs...
In gogleva/SecretSanta: flexible pipelines for secretome prediction

Description Usage Arguments Slots Examples

accessor functions for objects of ErResult S4 class, outputs of the check_khedel function

accessors for ErResult objects

getRetainedfasta(theObject)

## S4 method for signature 'ErResult'
getRetainedfasta(theObject)

theObject

an object of ErResult class

retained_fasta: sequences with ER retention signals
retained_fasta: sequences with ER retention signals

aa <- readAAStringSet(system.file("extdata","small_prot.fasta",
package = "SecretSanta"), use.names = TRUE)
inp <- CBSResult(in_fasta = aa)
sp <- signalp(input_obj = inp, version = 4, organism = 'euk',
run_mode = 'starter')
er <- check_khdel(sp, pattern = "prosite")
class(er)