DeepVariant

Align reads to the reference genome.

Run DeepVariant on the aligned reads to generate VCF/gVCF files.

Filter and annotate variants based on quality and functional impact.

Align reads to the reference genome.

Run DeepVariant on the aligned reads to generate VCF/gVCF files.

Focus analysis on variants within exonic regions.

Align RNA-Seq reads to the reference genome.

Run DeepVariant on the aligned reads to generate VCF/gVCF files.

Analyze variants for allele-specific expression and RNA editing.

Align reads from tumor and normal samples to the reference genome.

Run DeepSomatic on the aligned reads to generate VCF files with somatic mutations.

Filter and prioritize somatic variants based on cancer relevance.

Align reads from child and parents to the reference genome.

Run DeepTrio on the aligned reads to generate VCF files with trio-aware variant calls.

Analyze variants for inheritance patterns and de novo mutations.

Map reads to a pangenome graph.

Run DeepVariant on the mapped reads to generate VCF files.

Analyze variants in the context of population-specific genetic variation.