search

epi2me-labs / wf-transcriptomes

Other
64 stars 30 forks source link

Output BAM file? #38

Closed phillip-richmond-alamya closed 6 months ago

phillip-richmond-alamya commented 8 months ago

Is your feature related to a problem?

I need the minimap2 BAM file and preferably bam.bai index as well.

Describe the solution you'd like

Publish the mapped bam to the out dir.

https://github.com/epi2me-labs/wf-transcriptomes/blob/master/subworkflows/reference_assembly.nf

Describe alternatives you've considered

Looked for a flag but didn't see one.

Additional context

I need the BAM.

nrhorner commented 8 months ago

Hi @phillip-richmond-alamya

Thanks for your request. Yes it would make sense to publish the bam in the workflow. We will look to getting that added.

nrhorner commented 6 months ago

Hi @phillip-richmond-alamya BAM and index files are now output in v1.0.0

sarahjeeeze commented 6 months ago

Closing as this is resolved.