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ngs-variants-training

GitHub for the SIB courses NGS - Genome variant analysis

https://github.com/sib-swiss/ngs-variants-training

Science Score: 49.0%

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

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (4.3%) to scientific vocabulary

Keywords

course gatk ngs ngs-analysis teaching training tutorial variant-calling
Last synced: 6 months ago · JSON representation

Repository

GitHub for the SIB courses NGS - Genome variant analysis

Basic Info
Statistics
  • Stars: 25
  • Watchers: 5
  • Forks: 9
  • Open Issues: 2
  • Releases: 14
Topics
course gatk ngs ngs-analysis teaching training tutorial variant-calling
Created over 5 years ago · Last pushed about 1 year ago
Metadata Files
Readme License Zenodo

README.md

build workflow GitHub Release Date DOI License: CC BY-SA 4.0

Hosted at: https://sib-swiss.github.io/NGS-variants-training/

Course website

This website is generated with MkDocs, with the theme Material.

To host it locally, install MkDocs: bash pip install mkdocs

and Material: bash pip install mkdocs-material

Host it with: bash mkdocs serve

Check it out with your browser at http://localhost:8000/

Owner

  • Name: SIB Swiss Institute of Bioinformatics
  • Login: sib-swiss
  • Kind: organization
  • Location: Switzerland

GitHub Events

Total
  • Release event: 1
  • Push event: 1
  • Create event: 1
Last Year
  • Release event: 1
  • Push event: 1
  • Create event: 1

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 18
  • Total pull requests: 3
  • Average time to close issues: 5 months
  • Average time to close pull requests: less than a minute
  • Total issue authors: 1
  • Total pull request authors: 1
  • Average comments per issue: 0.44
  • Average comments per pull request: 0.0
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • GeertvanGeest (13)
Pull Request Authors
  • GeertvanGeest (2)
Top Labels
Issue Labels
Pull Request Labels

Dependencies

Docker/environment.yml conda
  • bwa 0.7.17.*
  • gatk4 4.2.6.*
  • python 3.8.*
  • r-base
  • samtools 1.12.*
  • snpeff 5.0.*
docs/assets/yaml/environment.yml conda
  • bwa 0.7.17.*
  • gatk4 4.2.6.*
  • python 3.8.*
  • r-base
  • samtools 1.12.*
  • snpeff 5.0.*
.github/workflows/docker-image-manual.yml actions
  • actions/checkout v3 composite
  • docker/build-push-action v3 composite
  • docker/login-action v2 composite
  • docker/metadata-action v4 composite
.github/workflows/docker-image.yml actions
  • actions/checkout v2 composite
  • docker/build-push-action v2 composite
  • docker/login-action v1 composite
  • docker/metadata-action v3 composite
  • docker/setup-buildx-action v1 composite
  • docker/setup-qemu-action v1 composite
Docker/Dockerfile docker
  • linuxserver/code-server 4.5.1 build