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Old 02-07-2020, 09:32 AM   #1
oiiio
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Location: USA

Join Date: Jan 2011
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Default Pipelines for low coverage genomes

For whole genome sequencing at 1x or below, does anyone have a pipeline that they get results that they trust with?

Ideally this would include and aligner, variant caller, imputation tool, and any preprocessing steps in between. For example BWAMEM, PICARD, GATK, IMPUTE2.
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