Revert codified DNA sequences to original DNA sequences.

Description

This function receives a vector of strings containing codified DNA and returns a vector of string containing original DNA sequences.

Usage

fromRRDNA(rrdnas)

Arguments

Value

Vector of original DNA sequences (character vector).

Note

This function is used internally to restore original DNA sequences stored in RqcResultSet objects (per file top reads).

Author(s)

Welliton Souza

See Also

perFileTopReads

Examples

dna <- "ATCG"
dna.converted <- toRRDNA(dna)
dna.reverted <- fromRRDNA(dna.converted)
all.equal(dna, dna.reverted)

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

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> library(Rqc)
Loading required package: BiocParallel
Loading required package: ShortRead
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

The following objects are masked from 'package:stats':

    IQR, mad, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, append,
    as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
    get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
    match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
    rbind, rownames, sapply, setdiff, sort, table, tapply, union,
    unique, unsplit

Loading required package: Biostrings
Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:base':

    colMeans, colSums, expand.grid, rowMeans, rowSums

Loading required package: IRanges
Loading required package: XVector
Loading required package: Rsamtools
Loading required package: GenomeInfoDb
Loading required package: GenomicRanges
Loading required package: GenomicAlignments
Loading required package: SummarizedExperiment
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Loading required package: ggplot2
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/Rqc/fromRRDNA.Rd_%03d_medium.png", width=480, height=480)
> ### Name: fromRRDNA
> ### Title: Revert codified DNA sequences to original DNA sequences.
> ### Aliases: fromRRDNA
> 
> ### ** Examples
> 
> dna <- "ATCG"
> dna.converted <- toRRDNA(dna)
> dna.reverted <- fromRRDNA(dna.converted)
> all.equal(dna, dna.reverted)
[1] TRUE
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>