Description of feature
I would like to be able to restrict the analysis to certain regions of the genome. Most obvious use case might be to not perform any calls or annotations on the unplaced contigs. I suggest that we implement a functionality by which the user can supply a bed file to target certain regions.
The parameters could look like this
--snv_call_region <call_region.bed>: Restrict variant calling to these regions
--snv_annotation_region <annotation_region.bed>: Same as call region unless specified
--sv_call_region <call_region.bed>: Restrict variant calling to these regions
--sv_annotation_region <annotation_region.bed>: Same as call region unless specified
Description of feature
I would like to be able to restrict the analysis to certain regions of the genome. Most obvious use case might be to not perform any calls or annotations on the unplaced contigs. I suggest that we implement a functionality by which the user can supply a bed file to target certain regions.
The parameters could look like this
--snv_call_region <call_region.bed>: Restrict variant calling to these regions--snv_annotation_region <annotation_region.bed>: Same as call region unless specified--sv_call_region <call_region.bed>: Restrict variant calling to these regions--sv_annotation_region <annotation_region.bed>: Same as call region unless specified