WolfResult_methods: accessor functions for objects of WolfResult S4 class,...

In gogleva/SecretSanta: flexible pipelines for secretome prediction

Description

accessor functions for objects of WolfResult S4 class, outputs of the wolf prediction step

accessors for WolfResult objects

Usage

setWOLFtibble(theObject, wolf_tibble)

## S4 method for signature 'WolfResult'
setWOLFtibble(theObject, wolf_tibble)

## S4 method for signature 'WolfResult'
getWOLFtibble(theObject)

Arguments

theObject	an object of WolfResult class
wolf_tibble	parsed output of wolfpsort in tabular format

Value

WolfResult object

Slots

wolf_tibble

tibble with outputs obtained from wolfpsort

• gene_id - unique sequence id

• localization - the most probable localization

Examples

library(Biostrings)
aa <- readAAStringSet(system.file("extdata","sample_prot_100.fasta",
package = "SecretSanta"))
inp <- CBSResult(in_fasta = aa[1:10])
s1_sp2 <- signalp(inp, version = 2, organism = 'euk',
run_mode = "starter", legacy_method = 'hmm')
w <- wolfpsort(s1_sp2, 'fungi')
class(w)
#access result tibble:
getWOLFtibble(w)
#acess in_fasta and out_fasta slots:
getInfasta(w)
getOutfasta(w)

gogleva/SecretSanta documentation built on May 30, 2019, 8:02 a.m.