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tasks/TNseq.wdl
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| @@ -39,7 +39,7 @@ task sentieon_TNseq{ | |||
| --algo TNhaplotyper2 $SAMPLE \ | |||
| --germline_vcf ${germline_resource} \ | |||
| ${sample_id}.TNseq.raw.vcf \ | |||
| --algo OrientationBias \ | |||
| --algo OrientationBias --tumor_sample ${tumor_name} \ | |||
| ${sample_id}.orientation \ | |||
| --algo ContaminationModel $SAMPLE \ | |||
| --vcf ${germline_resource} \ | |||
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