Create random sequences — random_seq • FastqCleaner
Description: Create a DNAStringSet object with random sequences

# Create random sequences

`random_seq.Rd`

Create a `DNAStringSet` object with random sequences

    random_seq(slength, swidth, nuc = c("DNA", "RNA"), prob = c(0.25, 0.25,
      0.25, 0.25))

## Arguments

slength | Number of sequences
swidth | Width of the sequences
nuc | Create sequences of DNA (nucleotides = c('A', 'C', 'G', 'T')) or RNA (nucleotides = c('A, 'C', 'G', 'U'))?. Default: 'DNA'
prob | A vector of four probability values used to set the frequency of the nucleotides 'A', 'C', 'G', 'T', for DNA, or 'A', 'C', 'G', 'U', for RNA. For example = c(0.25, 0.25, 0.5, 0). Default is = c(0.25, 0.25, 0.25, 0.25) (equiprobability for the 4 bases). If the sum of the probabilities is > 1, the values will be nomalized to the range [0, 1].

## Value

`DNAStringSet` object

## Examples

    # For reproducible examples, make a call to set.seed before
    # running each random function

    set.seed(10)
    s1 <- random_seq(slength = 10, swidth = 20)
    s1#>   A DNAStringSet instance of length 10
    #>      width seq
    #>  [1]    20 TGGTCCGGTGTTCTGGCGGA
    #>  [2]    20 ATAGGTACAGTCCAGTAATT
    #>  [3]    20 GCCTCCCGCAGACGCTGGGT
    #>  [4]    20 CCGGAATGCCCTTTCTGAGC
    #>  [5]    20 AGCTCCAGCCGTTTGACTTC
    #>  [6]    20 GCGGAAAGTGAACTTAGATT
    #>  [7]    20 CGGTCCTGAAACACGGTACT
    #>  [8]    20 TCCACAGTCAACCCGCCGAC
    #>  [9]    20 TTGGAGAATTTATTAGCCGG
    #> [10]    20 GCGGTTATTCCCCTAGTGAT
    set.seed(10)
    s2 <- random_seq(slength = 10, swidth = 20,
    prob = c(0.6, 0.1, 0.3, 0))
    s2#>   A DNAStringSet instance of length 10
    #>      width seq
    #>  [1]    20 AAAGAAAAGAGAAAAAAAAG
    #>  [2]    20 GGGAAGGAGAAAAGAGGCGA
    #>  [3]    20 AAAGAAAAAGACAAAAAAAA
    #>  [4]    20 AAAAGGAAAAAAGAAAACAA
    #>  [5]    20 GAAGAAGAAAAGAAAGAAGA
    #>  [6]    20 AAAACGCAGAGGAAGCAGGG
    #>  [7]    20 AAAAAAGAGCGAGAAAGGAA
    #>  [8]    20 GAACAGAGACGAAAAAAACA
    #>  [9]    20 GAAAGAGCGAAGGGCAAAAA
    #> [10]    20 AAAAAGGGGAAAAAGAAAGG