What is the cut-off value should I use?

[jsonProgram]

hi Jia,

Is it as same as msisensor2? cut-off value =20?

and,
for different sample type should have the different cut-off value ?

Json

[PengJia6]

hi Jia,

Is it as same as msisensor2? cut-off value =20?

and,
for different sample type should have the different cut-off value ?

Json

Hi Json,

MSIsensor-pro and MSIsensor2 are two different software for MSI calling. In MSIsensor-pro, we did not provide a cut-off, because the cut-off will be different for different sequencing panel. If you want to use MSIsensor-pro in a new panel for only tumor sample MSI detection, please use the msi status from msisensor or gold standard as true value to obtain a cut-off suit for your panel.

By the way, it seems that MSI is a continuous value, and you can just use msi score for you research.

Best,

Peng

[katecycho]

Do you have a recommendation of cut-off value for wgs??