User: Karolis Uziela

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5 years, 5 months ago
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5 years, 5 months ago
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k*************@scilifelab.se

Posts by Karolis Uziela

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Comment: C: GenomicRanges select parameter
... Thanks a lot for your answer! I know that I should set ignore.strand=TRUE, unless the protocol is strand-specific. In fact, I think you should make ignore.strand=TRUE default parameter, because most of the protocols aren't strand specific... Karolis On Mon, Jun 9, 2014 at 8:14 PM, Michael Lawrenc ...
written 5.5 years ago by Karolis Uziela30
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Comment: C: GenomicRanges select parameter
... Hi again, Actually, I have one more question. Let's assume, I have paired ended reads and I read them using command: bam_aligns <- readGAlignmentsFromBam(bam_file) Then, I use your approach to count the reads for each gene, but only adding the option ignore.strand=TRUE to findOverlaps function ...
written 5.5 years ago by Karolis Uziela30
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Answer: A: GenomicRanges select parameter
... Thanks Michael, that's a very smart solution! This is exactly what I wanted! :-) Regards, Karolis On Mon, Jun 9, 2014 at 5:05 PM, Michael Lawrence wrote: > Hi Karolis, > > I hope you don't mind that I've cc'd the Bioc help list for this reply. > The "arbitrary" select mode is not me ...
written 5.5 years ago by Karolis Uziela30

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