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[FEATURE] Output genomicsdb interval_list for downstream processing #8393

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percyfal opened this issue May 5, 2025 · 0 comments · May be fixed by #8394
Open

[FEATURE] Output genomicsdb interval_list for downstream processing #8393

percyfal opened this issue May 5, 2025 · 0 comments · May be fixed by #8394

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@percyfal
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percyfal commented May 5, 2025

Is your feature request related to a problem? Please describe

Genotype calling with GATK GenotypeGVCFs requires an intervallist in case the --all-sites option is used (see nf-core/sarek#1870). Currently, the intervallist used in GenomicsDBImport is not propagated to an output channel.

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Output interval_list file to channel for downstream processing percyfal/modules
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@percyfal