User: Watal M. Iwasaki
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Posts by Watal M. Iwasaki
... Hi all, I am trying to filter FASTQs with library(ShortRead). One of my FASTQs contains an entry with width=0 and it causes segfault in the following code: it = FastqStreamer('reads_1.fasta.gz', 10) srq = yield(it) as(quality(srq), 'matrix') I think I could remove those reads in advance with srq ...
Answer: A: Putative bug in Biostrings
... Thanks Herv?, Using pairwiseAlignment() instead of PairwiseAlignments() solved the problem. Sorry that I didn't read the documentation thoroughly and bothered you. Aside from refactoring in those functions and the documentation, it could be reasonable to exclude such low-level (and confusable) util ...
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