deepvariant

There are 2 repositories under deepvariant topic.

• google / deepvariant

  DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

  tensorflowdeep-neural-networkgenomicssciencednasequencinggenomebioinformaticsdeep-learningngsdeepvariantmachine-learning
  Language:Python 3077

• atgenomix / deepvariant-on-spark

  DeepVariant-on-Spark is a germline short variant calling pipeline that runs Google DeepVariant on Apache Spark at scale.

  sparkadamgenomicsngssequencingdeepvariantdeep-neural-networkbioinformaticsdna
  Language:Shell 12

• abs-tudelft / variant-calling-at-scale

  Scalable and High Performance Variant Calling on Cluster Environments

  gcp-dataproc-clusterbwaduplicates-removalvariant-callingdeepvariantminimap2
  Language:Python 10

• nikostr / dna-seq-deepvariant-glnexus-variant-calling

  A Snakemake workflow for variant calling with DeepVariant, and optionally joint variant calling using GLnexus.

  genomic-variant-callingdeepvariantsciworkflowssnakemakereproducibility
  Language:Python 4

• NCI-CGR / GEMSCAN

  Joint variant calling with GATK4 HaplotypeCaller, Google DeepVariant 1.0.0 and Strelka2, coordinated via Snakemake.

  snakemakeworkflowvariant-callingstrelka2gatk4-haplotypecallerdeepvariant
  Language:Python 3

• OrangeGenomix / spark-deepvariant-examples

  Notebooks and examples for DeepVariant on Spark project.

  sparkdeepvariantawsgenomicsvariant-callingpythonbioinformaticssequencingdnadeeplearningngs
  3

• GeneMAP-Research / genemapngs

  Workflows for whole-genome/exome sequencing data analysis

  deepvariantdragmapgatkwhole-exome-sequencingwhole-genome-sequencingglnexus
  Language:Nextflow 2

• saresend / deepvariant-challenge

  A small repo that eases use of google's deepvariant with GWA metastudies about hypertension

  deepvariantgenomics
  Language:Jupyter Notebook