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@sbl-sdsc

Structural Bioinformatics Laboratory

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  1. mmtf-pyspark mmtf-pyspark Public

    Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

    Python 67 27

  2. mmtf-workshop-2018 mmtf-workshop-2018 Public

    Structural Bioinformatics Training Workshop & Hackathon 2018

    Jupyter Notebook 57 34

  3. mmtf-genomics mmtf-genomics Public

    Methods for mapping genomic data onto 3D protein structure.

    Jupyter Notebook 27 10

  4. kg-import kg-import Public

    kg-import automates the ingestion of heterogeneous datasets into a Knowledge Graph.

    Jupyter Notebook 4 4

  5. kg-onto kg-onto Public

    Create Node and Relationship files from BioPortal ontologies for import into Property Graphs

    Jupyter Notebook 1 1

  6. neo4j-ipycytoscape neo4j-ipycytoscape Public

    Demo of Neo4j graph visualization with the ipycytoscape Jupyter Lab extension

    Jupyter Notebook 3 5

Repositories

Showing 10 of 24 repositories
  • kg-import Public

    kg-import automates the ingestion of heterogeneous datasets into a Knowledge Graph.

    Jupyter Notebook 4 BSD-3-Clause 4 4 (1 issue needs help) 0 Updated Mar 11, 2024
  • neo4j-ipycytoscape Public

    Demo of Neo4j graph visualization with the ipycytoscape Jupyter Lab extension

    Jupyter Notebook 3 BSD-3-Clause 5 0 1 Updated Sep 29, 2023
  • df-parallel Public

    Comparison of Dataframe libraries for parallel processing of large tabular files on CPU and GPU.

    Jupyter Notebook 5 BSD-3-Clause 3 0 0 Updated Aug 8, 2023
  • mmtf-pyspark Public

    Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.

    Python 67 Apache-2.0 27 8 0 Updated Mar 27, 2023
  • mmtf-benchmark Public

    Benchmark mmtf compression/decompression

    Java 0 1 0 0 Updated Feb 6, 2023
  • mmtf-genomics Public

    Methods for mapping genomic data onto 3D protein structure.

    Jupyter Notebook 27 Apache-2.0 10 0 0 Updated May 17, 2022
  • mmtf-workshop-2018 Public

    Structural Bioinformatics Training Workshop & Hackathon 2018

    Jupyter Notebook 57 Apache-2.0 34 3 0 Updated May 17, 2022
  • kg-bio Public

    Download and processes Biological Repositories for ingestion into Knowledge Graphs

    Jupyter Notebook 0 1 0 0 Updated May 16, 2022
  • kg-onto Public

    Create Node and Relationship files from BioPortal ontologies for import into Property Graphs

    Jupyter Notebook 1 BSD-3-Clause 1 1 0 Updated Apr 9, 2022
  • sars-cov-2-variants Public

    SARS-CoV-2 Variant metadata

    Jupyter Notebook 0 0 0 0 Updated Aug 2, 2021

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