Hervé Pagès

> So the question is if there is an easier / better way to do this conversion. Not at the moment but the good news is that we finally might...

@FelixErnst `BStringSet(as(as(as.raw(x),"XRaw"),"BString"))` actually does contain the original values: ``` > bstring identical(as.integer(bstring[[1]]), 0:255) [1] TRUE ``` > In addition you are not covering the standard, since you cannot represent 0...

Thanks @ahl27. My suggestion would be to map only non-printable ASCII codes to these special characters. But for printable ASCII codes (i.e. codes >= 32 and

@villafup @jwokaty Where are we standing with this PR?

I'm surprised this vignette made it to the sweave2rmd list. It's very old and outdated and doesn't have much value anymore. It was written to document the classes that I...

Hi Janet, I'll look at this after the next BioC release (next week). Thanks! H.

The problem is that in general there is more than one way to look at a palindrome when mismatches are allowed and occur at the beginning or end of the...

Just to clarify: That will only work if the center of the palindrome is at the center of the read sequence. But not if you want to find palindromes at...

> I'm not sure it's true that findPalindromes() will always find and report the palindrome with longest arms It's expected to do that. If it's not then it's a bug....

Hi @jayoung @twmccart, [Erik's patch](https://github.com/Bioconductor/Biostrings/pull/42), which includes [Thomas's earlier proposed changes](https://github.com/Bioconductor/Biostrings/pull/41), addresses the problem of `findPalindromes()` not always finding and reporting the palindrome with longest arms. With Biostrings 2.59.2: ```...