Is mutation detection on matched whole exome sequencing data a better solution?

zhouzilu / DENDRO

Genetic Heterogeneity Profiling by Single Cell RNA Sequencing

GNU General Public License v3.0

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Is mutation detection on matched whole exome sequencing data a better solution? #12

Open Pentayouth opened 4 years ago

Pentayouth commented 4 years ago

Hi Zilu Zhou:

Thank you for developing the software.

I would like to ask if detect SNA using matched WES data ( which means I have scRNA data and WES data from the same bulk tissue ) is a better VCF input？

Many Thanks

Ziwei Wang

zhouzilu commented 3 years ago

Hi Ziwei, Yes! We actually mentioned it in our manuscript but, unfortunately, we didn't have any paired data in hand. If your WES are of deep sequenced (100X for example), we would recommend use the WES data as a santify check for the scRNA data. For mutation detected in scRNA data, we will keep them only if there is at least on read contain such variants in the WES data