Modify a BED file

You can modify an existing target regions or hotspots BED file, if necessary, to remove regions from the file for which you do not want variants called.

If you modify a BED file, you must modify it before it is uploaded to Torrent Suite™ Software. A target regions or hotspots BED file cannot be modified after the file is uploaded.

To modify a BED file:

  1. Copy the BED file, then rename the new file in a way that reflects changes you make to the regions being analyzed.
  2. Open the BED file with a text editor.
  3. Delete the lines for regions you do not want.
  4. Save the file.
  5. Upload the modified file as described in Upload a target regions file or Upload a hotspots file.

    Note:

    • If the region (or regions) appears in both your target regions BED file and in your hotspots BED file, you must delete the line for those regions from both types of BED file.

    • Do not modify a VCF hotspots file. We recommend that you upload it first to convert it to a BED file before modifying it.

Related Topics
Parent topic: Target regions and hotspots files