executeAnnotation-method: executeAnnotation

In SimonSchafferer/short-ncrna-annotation: Non-coding RNA annotation package

Description

Executes the annotation based on a XStringSet object

Executes the annotation based on a XStringSet object

Usage

executeAnnotation(object, pathToFile, inputStringSet, ...)

## S4 method for signature 'NcbiBlastAnnotation'
executeAnnotation(object, pathToFile,
  inputStringSet, word_size = 11, num_threads = 2, dust = TRUE)

Arguments

object	currently supported: NcbiBlastAnnotation
pathToFile	path to an annotation File (currently ncbi makeblast db formatted database)
inputStringSet	XStringSet of the sequences one wants to annotate
...	special options for subclass defintions of executeAnnotation
object	currently supported: NcbiBlastAnnotation
pathToFile	path to an annotation File (currently ncbi makeblast db formatted database)
inputStringSet	XStringSet of the sequences one wants to annotate
ncbiBlast	specific parameters see: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/

SimonSchafferer/short-ncrna-annotation documentation built on May 9, 2019, 1:45 p.m.