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cyrcular-calling

A Snakemake workflow for ecDNA detection in Nanopore or Illumina sequencing reads derived from DNA samples enriched for circular DNA.

https://github.com/snakemake-workflows/cyrcular-calling

Science Score: 67.0%

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 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 (3.3%) to scientific vocabulary
Last synced: 10 months ago · JSON representation ·

Repository

A Snakemake workflow for ecDNA detection in Nanopore or Illumina sequencing reads derived from DNA samples enriched for circular DNA.

Basic Info
Statistics
  • Stars: 3
  • Watchers: 2
  • Forks: 2
  • Open Issues: 11
  • Releases: 4
Created over 4 years ago · Last pushed over 1 year ago
Metadata Files
Readme Changelog License Citation

README.md

Snakemake workflow: cyrcular-calling

Snakemake Tests Conventional Commits DOI

A Snakemake workflow for ecDNA detection in Nanopore or Illumina sequencing reads derived from DNA samples enriched for circular DNA.

Usage

The usage of this workflow is described in the Snakemake Workflow Catalog.

If you use this workflow in a paper, don't forget to give credits to the authors by citing the URL of this (original) repository.

Owner

  • Name: Snakemake-Workflows
  • Login: snakemake-workflows
  • Kind: organization

Citation (CITATION.cff) 

cff-version: 1.2.0
message: "If you use this workflow, please cite the article from preferred-citation and the workflow itself."
authors:
- family-names: "Hartmann"
  given-names: "Till"
  orcid: "https://orcid.org/0000-0002-6993-347X"
- family-names: "Lähnemann"
  given-names: "David"
  orcid: "https://orcid.org/0000-0002-9138-4112"
title: "snakemake-workflows/cyrcular-calling"
version: 1.2.0
doi: Zenodo DOI TBD
date-released: 2023-04-06
url: "https://github.com/snakemake-workflows/cyrcular-calling"
preferred-citation:
  type: article
  authors:
  - family-names: "Tüns"
    given-names: "Alicia Isabell"
    orcid: "https://orcid.org/0000-0003-0025-1304"
  - family-names: "Hartmann"
    given-names: "Till"
    orcid: "https://orcid.org/0000-0002-6993-347X"
  - family-names: "Magin"
    given-names: "Simon"
  - family-names: "Chamorro González"
    given-names: "Rocío"
    orcid: "https://orcid.org/0000-0002-5653-7259"
  - family-names: "Henssen"
    given-names: "Anton George"
    orcid: "https://orcid.org/0000-0003-1534-778X"
  - family-names: "Rahmann"
    given-names: "Sven"
    orcid: "https://orcid.org/0000-0002-8536-6065"
  - family-names: "Schramm"
    given-names: "Alexander"
    orcid: "https://orcid.org/0000-0001-7670-7529"
  - family-names: "Köster"
    given-names: "Johannes"
    orcid: "https://orcid.org/0000-0001-9818-9320"
  doi: "10.3389/fgene.2022.867018"
  journal: "Frontiers in Genetics"
  month: 05
  year: 2022
  title: "Detection and Validation of Circular DNA Fragments Using Nanopore Sequencing"

GitHub Events

Total
  • Issues event: 1
  • Issue comment event: 2
  • Push event: 31
  • Pull request review comment event: 7
  • Pull request review event: 5
  • Pull request event: 2
  • Create event: 2
Last Year
  • Issues event: 1
  • Issue comment event: 2
  • Push event: 31
  • Pull request review comment event: 7
  • Pull request review event: 5
  • Pull request event: 2
  • Create event: 2

Issues and Pull Requests

Last synced: 10 months ago

All Time
  • Total issues: 1
  • Total pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 1
  • Pull request authors: 0
  • Average comments per issue: 0.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • julia-luz (6)
Pull Request Authors
  • github-actions[bot] (3)
  • dlaehnemann (1)
  • tedil (1)
  • swcho-HYBigLab (1)
  • fxwiegand (1)
Top Labels
Issue Labels
Pull Request Labels
autorelease: pending (3)

Dependencies

.github/workflows/conventional-prs.yaml actions
  • amannn/action-semantic-pull-request v5 composite
.github/workflows/main.yaml actions
  • actions/checkout v3 composite
  • github/super-linter v4 composite
  • snakemake/snakemake-github-action v1 composite
.github/workflows/release-please.yaml actions
  • google-github-actions/release-please-action v3 composite