Torrent Suite Software 5.4 Help

Upload a BED or VCF file

These instructions upload a BED or VCF file from your local client machine to Torrent Suite™ Software. These instructions apply to both targeted regions of interest files and hotspot regions files.

Note:

You must upload only BED or VCF files that both match the reference and are for the correct reference version. The uploader attempts to validate the BED or VCF files, but cannot always detect the errors listed below.

You have the responsibility to avoid the following mismatch errors. The uploader does not always detect these errors:

  1. Upload a BED or VCF file to a reference genome of a different version (for example, an hg18 BED or VCF file with an hg19 reference).
  2. Upload a BED or VCF file for a different species.
  3. Upload a hotspots BED file as a targeted regions BED file, or upload a targeted regions BED file as a hotspots BED file.

    Follow these steps to upload a target regions BED file or hotspots BED or VCF file to a reference:

    1. In the Reference tab, click either the Hotspots or Target Regions tab in the left navigation panel:

      The Hotspots (or Target Regions) page opens:

    2. Click the Add Hotspots (or Add Target Regions) button in the top right corner. The New Hotspots (or New Target Regions) page opens:
    3. Click the Select File button and browse to the file to be uploaded.
    4. In the Reference menu, be careful to select the correct reference. The new file can only be used with this reference.
    5. Add the optional (but recommended) description and notes.
    6. Click the Upload Hotspots File (or Upload Target Regions File) button.

      Wait while the file is validated:

      For large files, validation can take a couple minutes. Refresh your browser to check that validation is complete.

Parent topic: Summary of steps to add a target regions or hotspots file