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@@ -70,7 +70,7 @@ Please note: this code's organization is in flux.
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#### 6. Short-Read Genotyping, Phasing, and Imputation
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| Workflow | Location | Description |
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|----------|----------|-------------|
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|HierarchicallyMergeVcfs|[Dockstore](https://dockstore.org/workflows/github.com/broadinstitute/lrma-aou1-panel-creation/KAGEPanelWithPreprocessing:sl_v1.1b)| Per chromosome, creates a kmer index and count model for KAGE genotyping from a reference panel. |
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|KAGEPanelWithPreprocessing|[Dockstore](https://dockstore.org/workflows/github.com/broadinstitute/lrma-aou1-panel-creation/KAGEPanelWithPreprocessing:sl_v1.1b)| Per chromosome, creates a kmer index and count model for KAGE genotyping from a reference panel. |
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| KAGECasePerChromosomeFlexscattered |[Dockstore](https://dockstore.org/workflows/github.com/broadinstitute/lrma-aou1-panel-creation/KAGECasePerChromosomeFlexscattered:sl_v1.1b)| Genotypes a single sample against a reference panel with KAGE. |
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| GLIMPSEBatchedCasePerChromosomeSingleBatch |[Dockstore](https://dockstore.org/workflows/github.com/broadinstitute/lrma-aou1-panel-creation/GLIMPSEBatchedCasePerChromosomeSingleBatch:sl_v1.1b)| Performs phasing and imputation of a batch of genotyped samples against a reference panel with GLIMPSE. |
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| HierarchicallyMergeVcfs |[Dockstore](https://dockstore.org/workflows/github.com/broadinstitute/lrma-aou1-panel-creation/HierarchicallyMergeVcfs:sl_v1.1b)| Hierarchically merges cohort VCFs using either bcftools or ivcfmerge. |
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