annotatePlain: Annotate a plain text file

In seqminer: Efficiently Read Sequence Data (VCF Format, BCF Format, METAL Format and BGEN Format) into R

Annotate a plain text file

Description

Annotate a plain text file

Usage

annotatePlain(inFile, outFile, params)

Arguments

inFile	input file name
outFile	output file name
params	parameters

Value

0 if succeed

Examples

param <- list(reference = system.file("tabanno/test.fa", package = "seqminer"),
              geneFile = system.file("tabanno/test.gene.txt", package = "seqminer"),
              inputFormat = "plain")
param <- makeAnnotationParameter(param)
inFile <- system.file("tabanno/input.test.plain.txt", package = "seqminer")
outFile <- file.path(tempdir(), "out.annotated.txt")
annotatePlain(inFile, outFile, param)
cat('Outputted annotation results are in the temp directory:', outFile, '\n')

seqminer documentation built on Oct. 7, 2024, 1:15 a.m.