In FelixErnst/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

FelixErnst/Modstrings documentation built on April 1, 2024, 2:21 p.m.