Supported Ion AmpliSeq™ panels
The variantCaller plugin supports the various panels in the Ion AmpliSeq™ family of sequencing kits, including the following:
The following table lists the variantCaller parameter options that are pre-defined and optimized for ampliseq.com panels or TargetSeq™ data:
|
Panel or application |
the variantCaller plugin Pre-set parameter defaults |
|---|---|
|
Germline - Proton - Low Stringency |
|
|
CCP PGM |
Somatic - PGM - Low Stringency |
|
CCP Proton |
Somatic - Proton - Low Stringency |
|
CHP2 (HSM2) |
Somatic - PGM - Low Stringency |
|
CHv1 |
Somatic - PGM - Low Stringency |
|
IDP |
Germline - PGM - Low Stringency |
|
Germline - Proton TargetSeq - Low Stringency |