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epi2me-labs / wf-human-variation

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Input multiple sub.BAM files for a single sample #121

Closed phillip-richmond-alamya closed 4 months ago

phillip-richmond-alamya commented 10 months ago

Is your feature related to a problem?

The latest dorado basecaller is producing a few thousand sub.bam files into a folder, which I then need to merge into a single BAM file before starting EPI2ME. It would be lovely if I can skip that step external to the wf-human-variation pipeline. Is that possible?

Describe the solution you'd like

Allow input_bam_folder as a parameter as opposed to a single .bam file.

Describe alternatives you've considered

I can merge the bam files myself prior to running wf-human-variation

Additional context

Would be very helpful and save time!

Thanks!

RenzoTale88 commented 10 months ago

@phillip-richmond-alamya thanks for the feedback, we will have a look into this.

RenzoTale88 commented 4 months ago

@phillip-richmond-alamya we added support to multiple BAM for a single sample as of v2.1.0.