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CRAM compatibility #4

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CRAM compatibility#4

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@callumjethomas
callumjethomas
opened on Mar 31, 2026
  1. Is this tool compatible with CRAM input files? The documentation only mentions BAM/SAM.
  2. Is it possible to output to CRAM format, or can the output only be in BAM format?
  3. Is it possible in future updates to either add the ability to output to CRAM format, or output to stdout, so that it can be piped directly to samtools to perform CRAM compression?

Thank you.

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