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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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WGS best practices #21

Open yajass opened 2 years ago

yajass commented 2 years ago

Thanks for creating this tool. I'm running paired tumor-normal WGS samples. Using msisensor2 scan returns ~30 million sites when running with default settings. This seems excessive and msisensor2 msi takes very long to run. Do you recommend more appropriate parameters for msisensor scan when using WGS data?

Beifang commented 2 years ago

-b threads number for parallel computing, default=1

You can try this share memory parallel option. ( OpenMP based multi-threads parallel)

bounlu commented 8 months ago

If not compiled with openMP, does -b have any effect?