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ATGENOMIX

Cloud-native biomedical informatics platform

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  1. deepvariant-on-spark deepvariant-on-spark Public

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

    Shell 13 5

  2. graphseq graphseq Public

    String Graph Construction on Spark

    Python 3

  3. deepvariant deepvariant Public

    Forked from google/deepvariant

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

    Python 1 1

  4. hail hail Public

    Forked from hail-is/hail

    Scalable genomic data analysis.

    Scala 1

  5. connectedreads connectedreads Public

    a machine-learning optimized long-range genome analysis workflow for next-generation sequencing

    Scala 1

  6. cromwell cromwell Public archive

    Forked from broadinstitute/cromwell

    Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

    Scala

Repositories

Showing 10 of 20 repositories
  • kneaddata Public Forked from biobakery/kneaddata

    Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.

    atgenomix/kneaddata’s past year of commit activity
    Python 0 29 0 0 Updated Dec 24, 2024
  • seqslab-api-reference Public

    SeqsLab REST API YAML files for docs.atgenomix.com

    atgenomix/seqslab-api-reference’s past year of commit activity
    0 0 0 0 Updated Dec 4, 2024
  • seqslab-operators Public

    Atgenomix Operators are SeqsLab platform plugins and open-source Cromwell extensions that streamline heterogeneous data integration and transformation, and scale complex workflow tasks, using distributed computing clusters and GPU accelerators.

    atgenomix/seqslab-operators’s past year of commit activity
    Scala 0 Apache-2.0 0 1 1 Updated Oct 18, 2024
  • shinyapps Public

    Shiny apps on Atgenomix SeqsLab

    atgenomix/shinyapps’s past year of commit activity
    R 0 Apache-2.0 0 2 1 Updated Oct 14, 2024
  • sparklyr Public Forked from sparklyr/sparklyr

    R interface for Apache Spark

    atgenomix/sparklyr’s past year of commit activity
    R 0 Apache-2.0 315 0 0 Updated Sep 22, 2024
  • support Public
    atgenomix/support’s past year of commit activity
    0 0 0 0 Updated Sep 22, 2024
  • superset Public Forked from apache/superset

    Apache Superset is a Data Visualization and Data Exploration Platform

    atgenomix/superset’s past year of commit activity
    TypeScript 0 Apache-2.0 14,362 0 0 Updated Aug 28, 2024
  • seqslab-connector Public

    SeqsLab cluster and data lakehouse connector for Python

    atgenomix/seqslab-connector’s past year of commit activity
    Python 0 Apache-2.0 0 1 0 Updated Jul 10, 2024
  • spark-operator Public Forked from kubeflow/spark-operator

    Kubernetes operator for managing the lifecycle of Apache Spark applications on Kubernetes.

    atgenomix/spark-operator’s past year of commit activity
    Go 0 Apache-2.0 1,406 0 0 Updated Jun 2, 2024
  • assets Public
    atgenomix/assets’s past year of commit activity
    0 CC0-1.0 0 0 0 Updated Apr 10, 2024
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