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Clara Parabricks v3.0
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NVIDIA Clara
Clara Parabricks v3.0
3.0
Getting Started
NVIDIA CLARA PARABRICKS PIPELINES
What is CLARA PARABRICKS Pipelines?
Why use CLARA PARABRICKS Pipelines?
SOFTWARE OVERVIEW
SOFTWARE TOOLS OVERVIEW
PIPELINES OVERVIEW
GETTING STARTED
QUICKSTART GUIDE
PERFORMANCE TUNING
RUNNING NVIDIA CLARA PARABRICKS PIPELINES
OUTPUT COMPARISON
LOCAL INSTALLATION
PREREQUISITES
INSTALLATION STEPS
INSTALLATION OPTIONS
INSTALLING WITH SINGULARITY 3.0 OR HIGHER
UNINSTALLING PARABRICKS
Standalone Tools
FASTQ AND BAM PROCESSING OVERVIEW
FQ2BAM
BQSR
APPLYBQSR
VARIANT CALLERS
HAPLOTYPECALLER
MUTECTCALLER
DEEPVARIANT
CNVKIT
RNA
STAR
STAR-FUSION
QUALITY CONTROL (QC) METRICS
BAMMETRICS
COLLECTMULTIPLEMETRICS
VARIANT PROCESSING OVERVIEW
CNNSCOREVARIANTS
VARIANTFILTRATION
VQSR
JOINT CALLING OVERVIEW
TRIO COMBINE VGCF
CREATE GENOMICS DB
IMPORT GVCFTO DB
SELECT VARIANTS
GVCF PROCESSING OVERVIEW
INDEX GVCF
GENOTYPEGVCF
Pipelines
GERMLINE PIPELINE
QUICK START
DNAnexus
COMPATIBLE CPU BASED BWA-MEM, GATK4 COMMANDS
OPTIONS
DNANEXUS
HUMAN_PAR PIPELINE
QUICK START
COMPATIBLE CPU BASED BWA-MEM, GATK4 COMMANDS
OPTIONS
SOMATIC PIPELINE
QUICK START
OPTIONS
POPULATION STUDIES PIPELINE
OVERVIEW
QUICK START
CREATEGENOMICSDB OPTIONS
IMPORTGVCFTODB OPTIONS
SELECTVARIANTS OPTIONS
FAQs and Troubleshooting
FAQS AND TROUBLESHOOTING
CLI USAGE
Developer / Engineer
Healthcare & Life Sciences
Developer / Engineer
Dev / IT Operations
Computer Vision / Video Analytics
Healthcare & Life Sciences
Computer Vision / Video Analytics
© Copyright 2020, NVIDIA.
Last updated on Feb 2, 2023.
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