SeqNext: pre - defined Settings

Below you can download pre-defined analysis settings for easy import in SeqNext. These see-files contain analysis settings for mutation calling.

Please note, that these settings are only a proposal. They need to be fine-tuned depending on your data.

Installation (only for SeqPilot version 4.4.0):

  • download your preferred see-file using the links below
  • open SeqNext
  • go to Run
  • press [Settings]
  • press [Import...] in the Settings dialogue and select the downloaded see-file
  • press [OK] in all following dialogues to finish installation

 

Settings:

With genome mapping (raw data is mapped against genome to filter background):

Download Link Mutation Calling
Germline 5 GM Germline Mutations: Detection limit for variants is  5 % / 15 %
Germline 10 GM Germline Mutations: Detection limit for variants is  10 % / 20 %
Somatic 0.1 GM Somatic Mutations: Detection limit for variants is  0.1 % / 2 %
Somatic 1 GM Somatic Mutations: Detection limit for variants is  1 % / 5 %

 

Without genome mapping:

Download Link Mutation Calling
Germline 5 Germline Mutations: Detection limit for variants is  5 % / 15 %
Germline 10 Germline Mutations: Detection limit for variants is  10 % / 20 %
Somatic 0.1 Somatic Mutations: Detection limit for variants is  0.1 % / 2 %
Somatic 1 Somatic Mutations: Detection limit for variants is  1 % / 5 %