MaskedModString objects

The functions are implemented as defined in the Biostrings package. Have a look the MaskedXString class.

# S4 method for MaskedModString
seqtype(x)

Arguments

x

a ModString object.

Value

a MaskedModString object.

Examples

# Mask positions
mask <- Mask(mask.width=5, start=c(2), width=c(3))
mr <- ModRNAString("ACGU7")
mr
#> 5-letter ModRNAString object
#> seq: ACGU7

masks(mr) <- mask
mr
#> 5-letter MaskedModRNAString object (# for masking)
#> seq: A###7
#> masks:
#>   maskedwidth maskedratio active
#> 1           3         0.6   TRUE

# Invert masks
mr <- gaps(mr)
mr
#> 5-letter MaskedModRNAString object (# for masking)
#> seq: #CGU#
#> masks:
#>   maskedwidth maskedratio active
#> 1           2         0.4   TRUE

# Drop the mask
masks(mr) <- NULL
mr
#> 5-letter ModRNAString object
#> seq: ACGU7