Documentation

• DeepVariant release notes

Quick start and Case studies

• DeepVariant quick start
• DeepVariant whole genome case study
• DeepVariant exome case study
• DeepVariant PacBio case study
• DeepVariant ONT R10.4 simplex case study
  DeepVariant ONT R10.4 duplex case study
• DeepVariant hybrid (PacBio and Illumina) case study
• DeepVariant Complete Genomics T7 case study
• DeepVariant Complete Genomics G400 case study
• Runtime and accuracy metrics for all DeepVariant models
• Best practices for multi-sample variant calling
• Using graph genomes: VG Giraffe + DeepVariant case study

Visualization and analysis

• show_examples: Saving human-readable images from DeepVariant examples
• VCF stats report
• Runtime by region for make_examples

Colab notebooks

• Colab example: visualizing pileup images/tensors
• Can you beat DeepVariant?: A look inside the classification task
• Google Developer Codelab: Variant Calling on a Rice genome with DeepVariant

(Advanced) Training

• Advanced Case Study: Train a customized SNP and small indel variant caller
  for BGISEQ-500 data
• DeepVariant training data

More details

• DeepVariant usage guide
• Building and testing DeepVariant
• DeepVariant Genomic VCF (gVCF) support
• Getting Started with GCP (It is not required to
  run DeepVariant on GCP.)