Fix links to format pages

docs/Data/Bioinformatics_Pipelines/DNA_Seq_Variant_Calling_Pipeline.md

@@ -186,7 +186,7 @@ Aligned and co-cleaned BAM files are processed through the [Somatic Mutation Cal
 
 Note that [SomaticSniper](http://gmt.genome.wustl.edu/packages/somatic-sniper/) [[5]](http://bioinformatics.oxfordjournals.org/content/28/3/311.short) was used and available on the GDC Data Portal prior to [GDC Data Release 35](https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-350).
 
-Variant calls are reported by each pipeline in a VCF formatted file. See the GDC [VCF Format](../File_Formats/VCF_Format/) documentation for details on each available field. At this point in the DNA-Seq pipeline, all downstream analyses are branched into four separate paths that correspond to their respective variant calling pipeline.
+Variant calls are reported by each pipeline in a VCF formatted file. See the GDC [VCF Format](/Data/File_Formats/VCF_Format/) documentation for details on each available field. At this point in the DNA-Seq pipeline, all downstream analyses are branched into four separate paths that correspond to their respective variant calling pipeline.
 
 #### Pipeline Descriptions
 Four separate variant calling pipelines are implemented for GDC data harmonization. There is currently no scientific consensus on the best variant calling pipeline so the investigator is responsible for choosing the pipeline(s) most appropriate for the data. Some details about the pipelines are indicated below.
@@ -553,7 +553,7 @@ The Somatic Aggregation Workflow generates one MAF file from multiple VCF files;
 
 ### Masked Somatic Aggregation Workflow
 
-The MAF files generated by Somatic Aggregation Workflow are controlled-access due to the presence of germline mutations. Open-access MAF files are modified for public release by removing columns and variants that could potentially contain germline mutation information. See the GDC [MAF Format](../File_Formats/MAF_Format/) for details about the criteria used to remove variants.
+The MAF files generated by Somatic Aggregation Workflow are controlled-access due to the presence of germline mutations. Open-access MAF files are modified for public release by removing columns and variants that could potentially contain germline mutation information. See the GDC [MAF Format](/Data/File_Formats/MAF_Format/) for details about the criteria used to remove variants.
 
 While these criteria cause the pipeline to over-filter some of the true positive somatic variants in open-access MAF files, they prevent personally identifiable germline mutation information from becoming publicly available. The GDC recommends that investigators explore both controlled and open-access MAF files if omission of certain somatic mutations is a concern.