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epi2me-labs / wf-human-variation

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targeted gVCF file #119

Closed stefvanbreemen closed 9 months ago

stefvanbreemen commented 10 months ago

Ask away!

for my workflow i need to have a gVCF with only certain regions of the genome. I have tried this with the --bed option but this doesn't seem to do the right thing. so my question is:

should it work via a bed file with the --bed option?

if not: is it possible within this pipeline?

RenzoTale88 commented 10 months ago

@stefvanbreemen thanks for letting us know about this. We are looking into it.

RenzoTale88 commented 9 months ago

@stefvanbreemen could you please try with the latest version of the workflow and let us know if this fixes it?

nextflow run epi2me-labs/wf-human-variation -r v1.9.1 [OPTIONS HERE]
stefvanbreemen commented 9 months ago

sorry for the late reaction, it did work. thank you very much!