Y-DNA Data Warehouse Instructions

The submission form provides the ability to donate various formats of direct to consumer DNA testing results to support research of the human Y-DNA tree. The form provides two mechanisms to supply the raw data for analysis.

Shared Link Submissions

The preferred submission method allows providing a URL access token where the results may be downloaded by our server asynchronously. This allows you to avoid web traffic-related issues and save time uploading multi-megabyte files from your browser. We will let you know when the file has been successfully made available to the analysts via email.

Submit Directly From FTDNA

  1. Fill in the FTDNA kit# and make sure the correct Human Reference Build is selected.
  2. Fill in the Most Distant Known Male Ancestor information that you are comfortable sharing. Please remember, only the Surname and year of birth should be provided. We will provide the ability to provide more details privately for genealogical matching in the future.
  3. Log into your FTDNA account in a second browser window and navigate to the Big Y results page.
  4. Click the blue "Download VCF" button to open the download screen. Big Y Download Bar
  5. Right click (or hold down the Control key while clicking on a Mac) the green "Download VCF" button. This will show a context menu of choices. Download popup sample
  6. Choose the "Copy Link" menu item.
  7. Paste the link into the "Download URL" box of the submission form.

Submit Directly From FGC

  1. Select FGC from the available labs.
  2. Fill in the FGC kit#.
  3. Select the appropriate test type for the submission.
  4. Ensure the correct human reference build is selected.
  5. Fill in the Most Distant Known Male Ancestor information that you are comfortable sharing. Please remember, only the Surname and year of birth should be provided. We will provide the ability to provide more details privately for genealogical matching in the future.
  6. Log into your FGC account in a second browser window.
  7. Right click (or hold down the Control key while clicking on a Mac) the "Interpretation Results" link. This will show a context menu of choices.
  8. Choose the "Copy Link" menu item. Different browsers may show "Copy Link location", "Copy location", etc...
  9. Paste the link into the "Download URL" box of the submission form.

Submit a YSEQ WGS Test Result

YSEQ.ORG has partnered with the Y-DNA Warehouse to allow their customers to share the raw data directly. Ask their customer support team to share the results with Y-DNA Warehouse and use our contact page to provide the information about your MDKA.

Submit a WGS Test Result

Your WGS BAM contains a great deal of senstive information, which we recommend that you filter off prior to sharing the reads with us. The task can be accomplished with a variety of tools, but this is the preferred method:

  • (GRCh37) sambamba view -F "ref_name == 'Y' or mate_ref_name =='Y' or ref_name == 'M' or mate_ref_name =='M'" -f bam -h WGS.GRCh37.bam -o chrYM.bam
  • (GRCh38) sambamba view -F "ref_name == 'chrY' or mate_ref_name =='chrY' or ref_name == 'chrM' or mate_ref_name =='chrM'" -f bam -h WGS.GRCh38.bam -o chrYM.bam

Sambamba may be found here. You could also use WGS Extract, if you are uncomfortable with a command line. The Y-DNA Warehouse has no plans of using the mtDNA data, but we recommend keeping them so you can use the same BAM for services such as YFULL who provides a more professional level of tools and reporting.

Once the files have been filtered, they should be between 400MB and 1GB depending on your read depth. The file should be placed in a service such as Drobox, so that you can share the link. Fill out all the other information in the form as usual.

Submit Using File Sharing

  1. Select the lab that performed your testing.
  2. Fill in the kit#.
  3. Select the appropriate test type for the submission.
  4. Ensure the correct human reference build is selected.
  5. Fill in the Most Distant Known Male Ancestor information that you are comfortable sharing. Please remember, only the Surname and year of birth should be provided. We will provide the ability to provide more details privately for genealogical matching in the future.
  6. Paste the URL for the shared file in the Download URL box. NOTE: The link must navigate to a downloadable file. Dropbox shared files by default open a splash page. Make sure that the link ends with 1 instead of 0.

Direct Upload

The Direct upload tab allows you to include a ZIP file stored directly on your computer. To use this option choose the Direct tab and select the "Choose File" button to navigate to the ZIP file you wish to upload. The option is only recommended when the file is very small. If there are network errors, the entire process may need to be manually repeated.