error prone files in hg38

[wanqingshao]

Hi,

I'm trying to use mosaicHunter in hg38, could recreate all the resources except the error prone file. Do you have a version in hg38? Or could you provide some details on how to generate it? Looks like those are variants that were called in 3 different sources?

Many thanks!

Best, Wanqing

[AugustHuang]

Hi Wanqing,

You can use liftOver to convert the hg37 coordinates into hg38. If you have many samples sequenced in the same batch, you can generate your error prone file by yourself. To do so, you just run MosaicHunter for each of your sample without the error prone bed file, and then extract the sites which are recurrently called across multiple samples (e.g. >50% of samples) and save in the bed format.

Best, August

Wanqing Shao @.***> 于2022年8月24日周三 12:47写道：

Hi,

I'm trying to use mosaicHunter in hg38, could recreate all the resources except the error prone file. Do you have a version in hg38? Or could you provide some details on how to generate it? Looks like those are variants that were called in 3 different sources?

Best, Wanqing

— Reply to this email directly, view it on GitHub https://github.com/zzhang526/MosaicHunter/issues/9, or unsubscribe https://github.com/notifications/unsubscribe-auth/AB5FLLGHBGZG45QKPLZFMF3V2ZGZTANCNFSM57QBK44Q . You are receiving this because you are subscribed to this thread.Message ID: @.***>

--

[wanqingshao]

Thanks a lot for the quick rely, will try as suggested!