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Converting Sam File To Hdf5

Hi Guys

Just curious to know if anyone has poked around with converting a sam file to hdf5 format. I am not sure how it compares to a bam file but I guess it would be interesting to compare if HDF5 format can make the computation on sam/bam files more efficient.

-Abhi

sam samtools bam
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updated by Pierre Lindenbaum Pierre Lindenbaum • written by Abhi Abhi

1 answer

The BioHDF API seems to contain some references to the SAM/BAM format: http://www.hdfgroup.org/projects/biohdf/api_docs/html/structbioh5galignmentdata.html

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written by Pierre Lindenbaum Pierre Lindenbaum

Pierre : thanks ..the link is a good place for me to start playing

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written by Abhi Abhi

@Pierre: The whole BioHDF movement hit my radar sometime in 2010, but I haven't heard much about it since then. Do you know if it's getting any traction anywhere? Do you know people trying to use it?

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written by Steve Lianoglou Steve Lianoglou

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