User: Devin King
Devin King • 20
- Reputation:
- 20
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- New User
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- Last seen:
- 2 weeks, 5 days ago
- Joined:
- 10 months, 1 week ago
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- d******@stanford.edu
Posts by Devin King
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... The current paradigm to represent genomic variables (e.g. ChIP-seq coverage) in Bioconductor is as a named RleList or as a metadata column on a disjoint GRanges object. This can provide remarkable functionality and performance. However, how does one properly implement mathematical or statistical ope ...
written 8 months ago by
Devin King • 20
• updated 8 months ago by
Hervé Pagès ♦♦ 13k
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... 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 9 months ago by
Devin King • 20
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... 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 ...
written 10 months ago by
Devin King • 20
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