Repositories list

• bco_api

  Public
  The master repository for the JSON API.

  apijson

  Python

  •

  MIT License

  •2•2•5•0•Updated Oct 31, 2024Oct 31, 2024

• portal_userdb

  Public
  JavaScript

  •1•1•95•2•Updated Oct 31, 2024Oct 31, 2024

• bco-rag

  Public
  BioCompute Object Retrieval-Augmented Generation Tool

  Python

  •0•0•6•0•Updated Sep 23, 2024Sep 23, 2024

• pdf_to_bco_script

  Public
  A preliminary script for converting pdfs into biocompute objects. Accuracy varies from section to section.

  0•0•0•0•Updated Aug 27, 2024Aug 27, 2024

• playbook-partnership

  Public
  A repository for playbook partnership collaboration.

  TypeScript

  •

  Other

  •18•0•9•0•Updated Aug 12, 2024Aug 12, 2024

• dnanexus

  Public
  Python

  •

  MIT License

  •2•0•1•1•Updated Aug 2, 2024Aug 2, 2024

• linked-data-hub

  Public
  Linked Data Hub Schema and Script

  Python

  •0•0•0•0•Updated Jul 25, 2024Jul 25, 2024

• BCO_Documentation

  Public
  Repository for documentation to support the IEEE 2791-2020 standard. Please see our home page for communications/publications:

  workflowbioinformaticsstandardization+ 2science-communicationhts-computations

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •12•16•9•0•Updated Jul 22, 2024Jul 22, 2024

• w3id.org

  Public
  Website source code for w3id.org

  HTML

  •1.2k•0•0•0•Updated Jul 18, 2024Jul 18, 2024

• bco2markdown

  Public
  Code for converting a BCO to a Markdown file

  Python

  •0•0•0•0•Updated Jul 9, 2024Jul 9, 2024

• biocompute-object-llm

  Public
  BioCompute Object Assistant

  HTML

  •2•1•0•0•Updated May 9, 2024May 9, 2024

• Mockup

  Public
  0•0•0•0•Updated Mar 27, 2024Mar 27, 2024

• galaxy

  Public
  Data intensive science for everyone.

  Python

  •

  Other

  •1k•2•10•0•Updated Feb 14, 2024Feb 14, 2024

• bco-ro-crate

  Public
  Tutorial and specification for packaging IEEE 2791-2020 BCOs as RO-Crate Research Objects

  BSD 3-Clause "New" or "Revised" License

  •1•0•0•1•Updated Dec 20, 2023Dec 20, 2023

• portal

  Public archive
  BCO Portal rebuild.

  JavaScript

  •

  MIT License

  •0•3•30•0•Updated Mar 8, 2023Mar 8, 2023

• bcotool

  Public
  Python

  •

  MIT License

  •5•2•6•3•Updated Feb 22, 2023Feb 22, 2023

• galaxy_server

  Public
  Configuration for Galaxy Installation with Ansible in AWS for the BioCompute Project

  Jinja

  •

  MIT License

  •0•0•1•0•Updated Feb 7, 2023Feb 7, 2023

• extension_domain

  Public
  extension schema for BCO

  1•0•0•0•Updated Feb 7, 2023Feb 7, 2023

• userdb

  Public archive
  Python

  •

  MIT License

  •0•1•2•0•Updated Jan 2, 2023Jan 2, 2023

• -Tool-Type-Dictionary

  Public
  1•0•0•0•Updated Jul 12, 2022Jul 12, 2022

• library

  Public
  Standard library to support the IEEE 2791-2020 standard.

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated May 31, 2022May 31, 2022

• bco_editor

  Public archive
  A web application that can be used to create and edit BioCompute objects based on BioCompute schema described in the BCO specification document.

  web-applicationbiocomputebiocompute-objects+ 1bco

  JavaScript

  •

  BSD 3-Clause "New" or "Revised" License

  •7•2•36•6•Updated Apr 22, 2022Apr 22, 2022

• bco-public-website

  Public
  A Hugo-based deployment of biocomputeobject.org

  biologystandardsbioinformatics-pipeline+ 6workflowsngs-analysisscience-communicationhts-computationsregulatory-genomicshigh-th

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •2•0•7•0•Updated Sep 10, 2021Sep 10, 2021

• bco-ro-example-chipseq

  Public
  Packaging a IEEE 2791 described BioCompute Object as RO-Crate, using nf-core/chipseq as example

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •1•4•0•0•Updated May 18, 2021May 18, 2021

• biocompute

  Public
  Create and Manipulate BioCompute Objects

  R

  •3•0•0•0•Updated Feb 14, 2021Feb 14, 2021

• examples

  Public archive
  repo for BCO example flat files

  BSD 2-Clause "Simplified" License

  •0•1•0•0•Updated Jan 10, 2021Jan 10, 2021

• bco-app

  Public
  BCO App by Seven Bridges

  R

  •

  GNU Affero General Public License v3.0

  •4•1•0•0•Updated Dec 9, 2020Dec 9, 2020

• biocompute-objects.github.io

  Public
  Website redirection

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated Oct 29, 2020Oct 29, 2020

• RVDB-curation

  Public
  This wrapper enables the HPC execution of FDA DB curation and list all the step in a programming language style.

  Jupyter Notebook

  •

  MIT License

  •2•0•0•0•Updated Sep 3, 2020Sep 3, 2020

• BioComputeObjectCreatorCommandLineTool

  Public
  Python

  •

  MIT License

  •2•0•0•0•Updated Aug 27, 2020Aug 27, 2020