XStringQuality names don't render correctly for the quality object when quality scores contain backslashes. Seems like a quirk of R interpreting the backslash and the subsequent character as a single character.
q <- PhredQuality(c("\\]^_`abcd", "\\]^_`abcde", "AAAAAAAAAA"))
names(q) <- letters[1:3]
q
## PhredQuality object of length 3:
## width seq names
## [1] 9 \]^_`abcd a
## [2] 10 \]^_`abcde b
## [3] 10 AAAAAAAAAA c
XStringQualitynames don't render correctly for the quality object when quality scores contain backslashes. Seems like a quirk of R interpreting the backslash and the subsequent character as a single character.