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niu-lab / msisensor2

Microsatellite instability (MSI) detection for tumor only data.
GNU General Public License v3.0
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-d msisensor2_scan_result vs -M Model ? #18

Closed gudeqing closed 3 years ago

gudeqing commented 3 years ago

Hi, I found that options '-d' and '-M' could be either used, and the value of '-d' is the result of 'scan' while the value of '-M' is a predefined model. These two options will lead to different 'Number of total sites: ?', thus I wonder to know which one is prefered for tumor only mode. With best regards!

owehann commented 3 years ago

'-M' is a more suitable option. '-d' is a parameter inherited from MSIsensor to ensure that MSIsensor2 can still implement msIsensor's functionality, which is MSI detection for tumor-normal paired samples.