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australianbiocommons.github.io

Australian BioCommons ToolFinder and WorkflowFinder: contains tool and workflow install status

https://github.com/australianbiocommons/australianbiocommons.github.io

Science Score: 57.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 6 DOI reference(s) in README
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (5.9%) to scientific vocabulary

Keywords

infrastructure tools workflows
Last synced: 4 months ago · JSON representation ·

Repository

Australian BioCommons ToolFinder and WorkflowFinder: contains tool and workflow install status

Basic Info
  • Host: GitHub
  • Owner: AustralianBioCommons
  • License: apache-2.0
  • Language: Python
  • Default Branch: master
  • Homepage:
  • Size: 17.6 MB
Statistics
  • Stars: 6
  • Watchers: 4
  • Forks: 2
  • Open Issues: 0
  • Releases: 2
Topics
infrastructure tools workflows
Created over 5 years ago · Last pushed 4 months ago
Metadata Files
Readme Changelog License Citation

README.md

ToolFinder and WorkflowFinder

This repository contains structured documentation for the following BioCommons services:

Attributions

This work is supported by the Australian BioCommons via funding from Bioplatforms Australia, the Australian Research Data Commons (https://doi.org/10.47486/PL105) and the Queensland Government RICF programme. Bioplatforms Australia and the Australian Research Data Commons are funded by the National Collaborative Research Infrastructure Strategy (NCRIS).

Tool metadata is sourced from bio.tools where possible

Ison, J. et al. (2015). Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Research. DOI

bio.tools API

EDAM is used for tool list categorisation

Ison, J., Kalaš, M., Jonassen, I., Bolser, D., Uludag, M., McWilliam, H., Malone, J., Lopez, R., Pettifer, S. and Rice, P. 2013. EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats. Bioinformatics, 29(10): 1325-1332. DOI PMID: 23479348 Open Access

EDAM ontology GitHub

Owner

  • Name: AustralianBioCommons
  • Login: AustralianBioCommons
  • Kind: organization
  • Email: systems@biocommons.org.au

Documentation for the development, deployment and/or optimisation of key community-endorsed bioinformatics tools and workflows

Citation (CITATION.cff) 

# This CITATION.cff file was generated with cffinit.
# Visit https://bit.ly/cffinit to generate yours today!

cff-version: 1.2.0
title: ToolFinder and WorkflowFinder
doi: [DOI goes here]
message: >-
  If you use this software, please cite it using the
  metadata from this file.
type: software
authors:
  - given-names: Ove Johan Ragnar
    family-names: Gustafsson
    affiliation: 'Australian BioCommons, University of Melbourne, Melbourne, Victoria'
    orcid: 'https://orcid.org/0000-0002-2977-5032'
  - given-names: Uwe
    family-names: Winter
    affiliation: 'Australian BioCommons, University of Melbourne, Melbourne, Victoria'
    orcid: 'https://orcid.org/0009-0009-1878-4070'
  - given-names: Minh
    family-names: Vu
    affiliation: 'Australian BioCommons, University of Sydney, Sydney, New South Wales'
  - given-names: Sarah
    family-names: Beecroft
    affiliation: 'Pawsey Supercomputing Research Centre, Perth, Western Australia'
    orcid: 'https://orcid.org/0000-0002-3935-2279'
  - given-names: Marco
    family-names: De La Pierre
    affiliation: 'Pawsey Supercomputing Research Centre, Perth, Western Australia'
    orcid: 'https://orcid.org/0000-0002-7429-1846'
  - given-names: Dale
    family-names: Roberts
    affiliation: 'National Computational Infrastructure, The Australian National University, Canberra, Australian Capital Territory'
    orcid: 'https://orcid.org/0000-0003-3952-6344'
  - given-names: Gareth
    family-names: Price
    affiliation: 'Research Computing Centre, University of Queensland, Brisbane, Queensland'
    orcid: 'https://orcid.org/0000-0003-2439-8650'
  - given-names: Alain-Dominique
    family-names: Gorse
    affiliation: 'Queensland Cyber Infrastructure Foundation (QCIF), Brisbane, Queensland'
    orcid: 'https://orcid.org/0000-0003-1230-4194'
  - given-names: Nigel
    family-names: Ward
    affiliation: 'Australian BioCommons, Queensland Cyber Infrastructure Foundation (QCIF) University of Queensland, Brisbane, Queensland'
    orcid: 'https://orcid.org/0000-0003-3952-6344'
  - given-names: Jeffrey H
    family-names: Christiansen
    affiliation: 'Australian BioCommons, Queensland Cyber Infrastructure Foundation (QCIF) University of Queensland, University of Melbourne'
    orcid: 'https://orcid.org/0000-0002-8146-1225'
repository-code: >-
  https://github.com/AustralianBioCommons/australianbiocommons.github.io
url: 'https://australianbiocommons.github.io'
license: Apache-2.0

GitHub Events

Total
  • Issues event: 1
  • Issue comment event: 1
  • Push event: 15
  • Pull request event: 2
  • Create event: 1
Last Year
  • Issues event: 1
  • Issue comment event: 1
  • Push event: 15
  • Pull request event: 2
  • Create event: 1

Dependencies

requirements.txt pypi
  • fuzzywuzzy *
  • jsonpath_ng *
  • openpyxl *
  • pandas *
  • requests *
  • setuptools *
setup.py pypi