Running MosaicHunter on a specific genomic interval

[JiaweiShen1116]

Hi,

I am currently working a Snakemake workflow that involves running MosaicHunter in a parallelized fashion. My idea is to divide the entire genome into a specific number of .bed interval files, run MosaicHunter on each of the interval and then combine the final results (the final.passed.tsv on each interval) together in the end. Therefore I am wondering if there is an option MosaicHunter that allows it to run only a specific genomic interval. Thank you for your help.

Best,
Jiawei

[AugustHuang]

Hi Jiawei, Unfortunately MosaicHunter currently does not support this feature. But you can split the job of each sample into chromosomes and run each chromosome in parallel. To do so, you just need to modify the parameter of valid_references to only include a single chromosome name. Let me know if you have any further questions. Best, August Jiawei Shen ***@***.***> 于2022年9月2日周五 13:47写道：

…

Hi, I am currently working a Snakemake workflow that involves running MosaicHunter in a parallelized fashion. My idea is to divide the entire genome into a specific number of .bed interval files, run MosaicHunter on each of the interval and then combine the final results (the final.passed.tsv on each interval) together in the end. Therefore I am wondering if there is an option MosaicHunter that allows it to run only a specific genomic interval. Thank you for your help. Best, Jiawei — Reply to this email directly, view it on GitHub <#10>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AB5FLLCTKZACMGDQ7YXCGODV4I4T5ANCNFSM6AAAAAAQDO7MA4> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

--