User: Devin King

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Devin King0
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Posts by Devin King

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Comment: C: Possible issue with Rsamtools ScanBamParam mapqfilter
... Hi Hervé,   Thank you for your response, I apologize I haven't responded sooner. Here is a download link to a small bam file (2.9 Mb) and its associated bam index. The BAM is a sampling of about 15,000 PE reads on chromosome 1 (mapped with BWA to hg19). The index was created with Rsamtools:::index ...
written 10 days ago by Devin King0
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Possible issue with Rsamtools ScanBamParam mapqfilter
... I'm having an issue importing (part of) a BAM file into R using the Rsamtools readGAlignmentPairs() function. In particular, I raise a peculiar error ("subscript contains NAs") when using a ScanBamParam object with bamMapqFilter set to not NA and > 0.  This only happens with some BAM files, so it ...
rsamtools scanbamparam mapqfilter written 5 weeks ago by Devin King0

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