ModDNAString alphabet

In Modstrings: Working with modified nucleotide sequences

BiocStyle::markdown(css.files = c("custom.css"))

The alphabets for the modifications used in this package are based on the compilation of DNA modifications by the Hoffman lab [@Sood.2019]. The alphabet was modified to make it compatible for the Modstrings package.

If modifications are missing, let us know.

suppressPackageStartupMessages(library(Modstrings))
df <- as.data.frame(Modstrings:::additionalInfo(Modstrings:::MOD_DNA_STRING_CODEC))
df <- df[df$abbrev != "",]
colnames(df) <- c("modification",
                  "short name",
                  "nomenclature",
                  "orig. base",
                  "abbreviation")
knitr::kable(
  df, caption = 'List of DNA modifications supported by ModDNAString objects.'
)

sessionInfo()

References

Modstrings documentation built on Nov. 8, 2020, 7:51 p.m.