User: jhrf

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jhrf10
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10
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New User
Location:
United Kingdom
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4 years, 3 months ago
Joined:
5 years, 1 month ago
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Posts by jhrf

<prev • 5 results • page 1 of 1 • next >
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Comment: C: Bam Header Edit
... Please forgive me if I am wrong, but I don't think this answers the original question. samtools reheader will simply rewrite the BAM file after first writing the header. This means copying each BAM file all the way through. For large BAM files (it is not uncommon for me to work with 200GB files) thi ...
written 4.3 years ago by jhrf10
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Comment: C: Reading BAM files with gzip
... This looks interesting. Many thanks! ...
written 4.5 years ago by jhrf10
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Comment: C: Reading BAM files with gzip
... Thank you. This makes sense. Do you have any idea how I would go about doing this? I would quite like to do this as a learning exercise. I assume that the samtools must do this somewhere so I suppose I'll start by inspecting the relevant part of samtools. ...
written 4.5 years ago by jhrf10
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Reading BAM files with gzip
... The SAM specification states the following: BGZF is block compression implemented on top of the standard gzip file format....a compliant gunzip utility can decompress a BGZF compressed file I would like be able to read a BAM file using gzip, as the specification says I should be able to. However, ...
bam gzip written 4.5 years ago by jhrf10 • updated 4.5 years ago by Matt Shirley8.8k
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Does The Mapping Of A Read'S Pair Affect Its Own Mapping Score In Bwa?
... I would like to know more about how BWA treats the mapping score of paired end reads. I am familiar with the process used to assign mapping scores by BWA (thanks to this post). I see that the mapping score is affected by the correct mapping of a read's pair. But to what extent? For instance, if o ...
paired-end mapping bwa written 5.1 years ago by jhrf10 • updated 5 weeks ago by Biostar ♦♦ 20

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