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genomic-medicine-sweden · Feb 12, 2025 · 85399d3 · 85399d3
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commit 85399d3
Showing 1 changed file with 10 additions and 10 deletions.
diff --git a/docs/output.md b/docs/output.md
@@ -144,16 +144,16 @@ In general, annotated variant calls are output per family while unannotated call
 
 [Paraphase](https://github.com/PacificBiosciences/paraphase) is used to call paralogous genes.
 
-| Path                                                                    | Description                                               |
-| ----------------------------------------------------------------------- | --------------------------------------------------------- |
-| `paraphase/sample/{sample}/*.bam`                                              | BAM file with reads from analysed regions                 |
-| `paraphase/sample/{sample}/*.bai`                                              | Index of the BAM file                                     |
-| `paraphase/sample/{sample}/*.json`                                             | Summary of haplotypes and variant calls                   |
-| `paraphase/sample/{sample}_paraphase_vcfs/{sample}_{gene}_vcf.gz`     | VCF file per gene                                         |
-| `paraphase/sample/{sample}_paraphase_vcfs/{sample}_{gene}_vcf.gz.tbi` | Index of the VCF file                                     |
-| `paraphase/family/{family_id}/{family_id}_paraphase_merged.vcf.gz`                   | VCF file from paraphase, merged by family                 |
-| `paraphase/family/{family_id}/{family_id}_paraphase_merged.vcf.gz.tbi`               | Index of the VCF file merged by family                    |
-| `paraphase/family/{family_id}/{family_id}_merged.json`                               | Summary of haplotypes and variant calls, merged by family |
+| Path                                                                   | Description                                               |
+| ---------------------------------------------------------------------- | --------------------------------------------------------- |
+| `paraphase/sample/{sample}/*.bam`                                      | BAM file with reads from analysed regions                 |
+| `paraphase/sample/{sample}/*.bai`                                      | Index of the BAM file                                     |
+| `paraphase/sample/{sample}/*.json`                                     | Summary of haplotypes and variant calls                   |
+| `paraphase/sample/{sample}_paraphase_vcfs/{sample}_{gene}_vcf.gz`      | VCF file per gene                                         |
+| `paraphase/sample/{sample}_paraphase_vcfs/{sample}_{gene}_vcf.gz.tbi`  | Index of the VCF file                                     |
+| `paraphase/family/{family_id}/{family_id}_paraphase_merged.vcf.gz`     | VCF file from paraphase, merged by family                 |
+| `paraphase/family/{family_id}/{family_id}_paraphase_merged.vcf.gz.tbi` | Index of the VCF file merged by family                    |
+| `paraphase/family/{family_id}/{family_id}_merged.json`                 | Summary of haplotypes and variant calls, merged by family |
 
 ### Repeats