running Lumpy (v 0.2.13) on NA12878 build38 and comparing it to build37, I observed the following:
The run-time increased from 10 minutes to 10 hours, required RAM increased by 8x and the output contained 40% more variants. About the same amount of variants can not be mapped back to build37 using UCSC lift-over.
Is this also what you observed running Lumpy on build38? As suggested I am using exclude.cnvnator_100bp.GRCh38.20170403.bed.
Is there a way to reduce compute-time and RAM usage as it was for build37?
Hi
running Lumpy (v 0.2.13) on NA12878 build38 and comparing it to build37, I observed the following:
The run-time increased from 10 minutes to 10 hours, required RAM increased by 8x and the output contained 40% more variants. About the same amount of variants can not be mapped back to build37 using UCSC lift-over.
Is this also what you observed running Lumpy on build38? As suggested I am using exclude.cnvnator_100bp.GRCh38.20170403.bed.
Is there a way to reduce compute-time and RAM usage as it was for build37?
Thanks