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Read in parallel from NCBI Sequence Read Archive (SRA) format #93

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heuermh opened this issue Mar 8, 2019 · 1 comment
Open

Read in parallel from NCBI Sequence Read Archive (SRA) format #93

heuermh opened this issue Mar 8, 2019 · 1 comment

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@heuermh
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heuermh commented Mar 8, 2019 •
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File under nice to have.

I wrote something for ADAM that uses SRAFileReader but it reads serially on the master node. Is it possible to adapt SRAFileReader for Disq?
@heuermh heuermh changed the title Read in parallel from NCBI Sequence Read Archive (SRA) Read in parallel from NCBI Sequence Read Archive (SRA) format Jan 28, 2021
@heuermh
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heuermh commented Jan 28, 2021

Note that some SRA data are now available in .bam, .cram, and .fastq formats on S3 via

NIH NCBI Sequence Read Archive (SRA) on AWS
https://registry.opendata.aws/ncbi-sra/

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