User: Watal M. Iwasaki
Watal M. Iwasaki • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Japan
- Last seen:
- 2 years, 9 months ago
- Joined:
- 4 years, 3 months ago
- Email:
- h**********@gmail.com
Posts by Watal M. Iwasaki
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... 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 ...
written 2.8 years ago by
Watal M. Iwasaki • 10
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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 ...
written 4.3 years ago by
Watal M. Iwasaki • 10
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