In the Plan tab, click Settings (), then click References.

The main reference management page opens:

The main reference management page opens:

• Nucleotide sequence Test Fragments

• Reference Genomes for aligning reads

• DNA Barcodes for barcode set management

In this page you can select reference details, download a reference file from your Torrent server, add a new reference, or use the navigation tabs on the left:

• Reference Sequences. The main reference management page.

• Obsolete Reference Sequences. Lists references that need to be reindexed before use. Reindexing is required only on releases that involve a TMAP index change.

• Target Regions. Analysis is restricted to only the regions of interest that you specify in this file.

• Hotspots. Variant Caller output files include these positions whether or not a variant is called, and include evidence for a variant and the filtering thresholds that disqualified a variant candidate.

• Test Fragments. Known sequences used to monitor system characteristics.

• Barcodes. Work with Ion barcode sets or your own custom barcodes sets.

• Upload History. Shows the recent uploads of target regions, hotspots, and ampliseq.com zip files:

  

  The Status column shows any error results.