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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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