research-software-ecosystem/content

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A metadata commons to store research software metadata

Stars: 48
Forks: 35
Open beginner issues: 0
Indexed issues: 46
Avg merge: 19m
Merged PRs (30d): 887

Dominant language: HTML
License: CC-BY-4.0
Last GitHub push: Sep 20, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: Code of conduct
Beginner labels: help wanted

Beginner friendly Everything

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46 open issues indexed

Biotools IDs in tool metadata: how to deal with special cases Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#2108 · Opened Aug 14, 2026
Cleaning: file names consistency Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

research-software-ecosystem/content#2107 · Opened Aug 13, 2026
Cleaning: remove deprecated files? Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

research-software-ecosystem/content#2106 · 1 comment · Opened Aug 13, 2026
OpenEBench metadata dump Open

research-software-ecosystem/content#2104 · 2 assignees · Opened Aug 13, 2026
Inconsistencies in tool identifiers Open

research-software-ecosystem/content#2042 · 3 comments · 3 assignees · Opened Jul 15, 2026
Overview of RDF dumps & issues to solve or discuss Open

bioconductor-import biocontainers-import openebench-import workflowhub-import

research-software-ecosystem/content#1609 · 3 comments · 1 assignee · Opened Apr 30, 2026
How to annotate tool packaging entries? E. g. BioContainers, Bioconda Open

research-software-ecosystem/content#1559 · 6 comments · 2 assignees · Opened Apr 27, 2026
Metadata from imported packages that are no longer in the original repository Open

research-software-ecosystem/content#1549 · 1 comment · 1 reaction · 3 assignees · Opened Apr 23, 2026
Outdated tool version - example with Hifiasm Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

research-software-ecosystem/content#1548 · 3 comments · Opened Apr 23, 2026
WorkflowHub metadata Open

Difficulty 4/5 3-5 days Newbie friendliness 45/100

research-software-ecosystem/content#1547 · 4 comments · Opened Apr 22, 2026
Reconsider placement of Governance and Roles Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

research-software-ecosystem/content#1500 · Opened Apr 9, 2026
Create code to enable releases on github and zenodo Open

research-software-ecosystem/content#1409 · 2 assignees · Opened Mar 25, 2026
Add workflows and trainings ? Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

research-software-ecosystem/content#851 · 8 comments · 2 reactions · Opened Nov 21, 2025
Add logic to add tags from other communities Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#850 · 2 comments · Opened Nov 21, 2025
Prefix directories for scalability Open

Difficulty 5/5 Over a week Newbie friendliness 35/100

research-software-ecosystem/content#633 · 6 comments · 2 reactions · Opened Aug 16, 2023
Deal with deleted content in a provider registry Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#595 · Opened Mar 28, 2023
missing tools Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

research-software-ecosystem/content#479 · 4 comments · Opened Jan 12, 2021
Tools ecosystem processes Open

research-software-ecosystem/content#455 · 6 comments · 1 assignee · Opened Oct 21, 2020
Public Galaxy Server and Tool Metadata Open

discussion enhancement help wanted

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#440 · 5 comments · Opened Jul 23, 2020
Remove EDAM term labels before upload in runbiotools Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

research-software-ecosystem/content#439 · 1 comment · Opened Jul 23, 2020
Order uploaded tools in runbiotools to handle tool "dependencies" Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

research-software-ecosystem/content#438 · Opened Jul 23, 2020
Weird folder with Biocontainers JSON file Open

invalid

Difficulty 2/5 1-3 hours Newbie friendliness 30/100

research-software-ecosystem/content#436 · 7 comments · Opened Jul 15, 2020
bioschemas generation folder Open

research-software-ecosystem/content#378 · 1 comment · 1 assignee · Opened Jun 10, 2020
What does spread DOIs do? Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

research-software-ecosystem/content#213 · 3 comments · Opened Apr 8, 2020
Action on tool delete Open

content discussion

Difficulty 5/5 Over a week Newbie friendliness 30/100

research-software-ecosystem/content#203 · 2 comments · Opened Apr 4, 2020
biotoolsID handling in GitHub ecosystem and bio.tools Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#165 · 4 comments · Opened Mar 17, 2020
Committing bioschemas right after creating Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

research-software-ecosystem/content#89 · Opened Feb 28, 2020
Checking and forbidding "citation explosion" Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#88 · 1 comment · 2 reactions · Opened Feb 28, 2020
💌 Files from Debian 🐞 Open

Difficulty 4/5 3-5 days Newbie friendliness 42/100

research-software-ecosystem/content#57 · 5 comments · Opened Feb 26, 2020
Issues with 3 Debian links to bio.tools Open

Difficulty 3/5 1-2 days Newbie friendliness 62/100

research-software-ecosystem/content#56 · 1 comment · Opened Feb 26, 2020
bio.tools IDs in Bioconda not in bio.tools Open

research-software-ecosystem/content#52 · 2 comments · 2 reactions · 1 assignee · Opened Feb 25, 2020
Please change 'clustalw' ID Open

content

research-software-ecosystem/content#45 · 2 comments · 1 assignee · Opened Feb 9, 2020
CI should skip non "biotools" entries Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

research-software-ecosystem/content#34 · Opened Jan 31, 2020
Exclude some biotoolsIDs from id checking Open

research-software-ecosystem/content#30 · 3 comments · 1 assignee · Opened Jan 30, 2020
rename repo Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

research-software-ecosystem/content#16 · 1 comment · 1 reaction · Opened Aug 7, 2019
where should container/package be defined? Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#13 · 4 comments · Opened Mar 15, 2019
data integration: augmenting bio.tools Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#12 · 1 comment · Opened Feb 1, 2019
Data integration: ensuring coverage in bio.tools Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#11 · 2 comments · Opened Feb 1, 2019
Curation work to ensure all entries give "canonical" tool descriptions Open

research-software-ecosystem/content#10 · 12 comments · 3 assignees · Opened Feb 1, 2019
Information mapping, gap analysis & schema revision Open

research-software-ecosystem/content#9 · 4 comments · 1 assignee · Opened Feb 1, 2019
bio.tools database update mechanism Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#8 · 4 comments · Opened Feb 1, 2019
Data serialisation and transformation Open

research-software-ecosystem/content#7 · 1 comment · 1 assignee · Opened Feb 1, 2019
Preserving full-strength validation & error reporting Open

research-software-ecosystem/content#5 · 2 comments · 1 assignee · Opened Feb 1, 2019
Managing the curation maintenance burden (pull requests) Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#4 · 1 comment · Opened Feb 1, 2019
Entry ownership and editing rights (preservation of) Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

research-software-ecosystem/content#3 · 3 comments · Opened Feb 1, 2019
Consider shim for Debian Common Tool Descriptors Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

research-software-ecosystem/content#316 · Opened Feb 19, 2018

research-software-ecosystem/content

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