This function creates SNVs.
Arguments
- chr
The name of the chromosome in which the SNV occurs.
- chr_pos
The position in the chromosome where the SNV occurs.
- alt
The base after the mutation.
- ref
The base before the mutation (optional).
- allele
The allele in which the SNV must occur (optional).
- cause
The cause of the SNV (optional).
See also
Mutation() for SNV and indel creation.
Examples
# create a SNV without specifying the cause and context
snv <- SNV("X", 20002, "T")
snv
#> SNV(chr: X, chr_pos: 20002, allele: random, ref: ?, alt: T)
# create a SNV and do not specify the cause
snv <- SNV("X", 20002, "T", "A")
snv
#> SNV(chr: X, chr_pos: 20002, allele: random, ref: A, alt: T)
# create a SNV that must be place in allele 1
snv <- SNV("X", 20002, "T", allele = 1)
snv
#> SNV(chr: X, chr_pos: 20002, allele: 1, ref: ?, alt: T)
# create a SNV with a cause
snv <- SNV("X", 20002, "T", cause = "SBS1")
snv
#> SNV(chr: X, chr_pos: 20002, allele: random, ref: ?, alt: T, cause: "SBS1")