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Implement rules for squigualizer viz #33

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jayhesselberth opened this issue Jan 10, 2025 · 0 comments
Open

Implement rules for squigualizer viz #33

jayhesselberth opened this issue Jan 10, 2025 · 0 comments

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@jayhesselberth
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Rules to implement:

  1. Blue crab

    • add blue-crab to pip installs
    • blue-crab p2s example.pod5 -o example.blow5

  2. f5c

    • add f5c to conda
    • f5c resquiggle --rna -c ${FASTQ} ${SIGNAL_FILE} -o ${ALIGNMENT}
    • use the cuda version f5c_x86_64_linux_cuda

  3. squigualizer

    • run interactively
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@jayhesselberth