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Bioconductor
Efficient manipulation of biological strings
Hi there, The function `matchPattern` allows the use of wildcards for DNA sequences; ``` testnucl
Hi, I'm encountering a very strange bug/error. 1. The error occurs only for a specific input dataset that has the same properties as hundreds of other input datasets that run...
Under Biostring 2.58.0 and R4.0.5 on both macOS and CentOS. ``` > Biostrings::DNAString("A") == "A" Error: C stack usage 7969280 is too close to the limit ``` Preconverting either side...
hi there, I was excited to see there's a findPalindromes function - this could be really useful for a project I'm working on at the moment. I'll probably want to...
Would it be possible to introduce checks for R in the C code? I would like to be able to use some of these functions with R.utils::withTimeout(), but the C...
I recently need to predict amplicons using primers with lots of ambiguity codes. The `matchProbePair` function seemed perfect but it does not interpret the IUPAC codes. I noticed the code...
hi there, Another thought about findPalindromes. Something about the way it treats mismatches between palindrome arms is a little unintuitive, biologically, while it is probably correct in the formal sense....
I got a help request from someone running iOS 10.12. The person couldn't figure out why `readDNAStringSet` didn't load the correctly formatted fasta file. After some troubleshooting I found out...
This is a follow up of https://support.bioconductor.org/p/122340/#122400 The `show()` method for XStringSet objects currently suggests the existence of a `seq()` getter for these objects: ``` library(Biostrings) library(drosophila2probe) dna
Hi @hpages and @lawremi, I was looking to set the *Seqinfo* on a *DNAStringSet* (created by importing a FASTA file) but found some inconsistent/incomplete behaviour, especially when **rtracklayer** was loaded...
