Science Score: 49.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
✓DOI references
Found 1 DOI reference(s) in README -
✓Academic publication links
Links to: zenodo.org -
○Committers with academic emails
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (7.8%) to scientific vocabulary
Keywords
demultiplex
fasta
fastq
ngs
Keywords from Contributors
barcode
edit-distance
hamming-distance
levenshtein-distance
Last synced: 6 months ago
·
JSON representation
Repository
Versatile FASTA/FASTQ demultiplexer.
Basic Info
Statistics
- Stars: 33
- Watchers: 3
- Forks: 9
- Open Issues: 0
- Releases: 5
Topics
demultiplex
fasta
fastq
ngs
Created almost 8 years ago
· Last pushed over 1 year ago
Metadata Files
Readme
Contributing
License
Code of conduct
README.rst
Demultiplex: FASTA/FASTQ demultiplexer ====================================== .. image:: https://img.shields.io/github/last-commit/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex/graphs/commit-activity .. image:: https://github.com/jfjlaros/demultiplex/actions/workflows/python-package.yml/badge.svg :target: https://github.com/jfjlaros/demultiplex/actions/workflows/python-package.yml .. image:: https://readthedocs.org/projects/demultiplex/badge/?version=latest :target: https://demultiplex.readthedocs.io/en/latest .. image:: https://img.shields.io/github/release-date/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex/releases .. image:: https://img.shields.io/github/release/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex/releases .. image:: https://img.shields.io/pypi/v/demultiplex.svg :target: https://pypi.org/project/demultiplex/ .. image:: https://img.shields.io/github/languages/code-size/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex .. image:: https://img.shields.io/github/languages/count/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex .. image:: https://img.shields.io/github/languages/top/jfjlaros/demultiplex.svg :target: https://github.com/jfjlaros/demultiplex .. image:: https://img.shields.io/github/license/jfjlaros/demultiplex.svg :target: https://raw.githubusercontent.com/jfjlaros/demultiplex/master/LICENSE.md .. image:: https://zenodo.org/badge/DOI/10.5281/zenodo.8362959.svg :target: https://zenodo.org/record/8362959 ---- Versatile NGS demultiplexer with the following features: - Support for FASTA and FASTQ files. - Support for gzip and bzip2 compressed files. - Support for multiple reads per fragment, e.g., paired-end. - Handles barcodes in the header and in the reads. - Handles barcodes at *unknown* locations in reads (e.g., PacBio or Nanopore barcodes). - Support for selection of part of a barcode. - Allows for mismatches, insertions and deletions. - Barcode guessing by frequency or fixed amount. - Handles large numbers (over one million) of barcodes. Please see ReadTheDocs_ for the latest documentation. .. _ReadTheDocs: https://demultiplex.readthedocs.io/en/latest/index.html
Owner
- Name: Jeroen F.J. Laros
- Login: jfjlaros
- Kind: user
- Company: @RIVM-syso @LUMC
- Repositories: 68
- Profile: https://github.com/jfjlaros
GitHub Events
Total
- Watch event: 1
- Fork event: 3
Last Year
- Watch event: 1
- Fork event: 3
Committers
Last synced: about 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Jeroen F.J. Laros | j****s@f****l | 47 |
| J.F.J. Laros | J****s@l****l | 43 |
| J.F.J. Laros | j****s@l****l | 13 |
Committer Domains (Top 20 + Academic)
lumc.nl: 2
fixedpoint.nl: 1
Issues and Pull Requests
Last synced: 9 months ago
All Time
- Total issues: 36
- Total pull requests: 0
- Average time to close issues: 14 days
- Average time to close pull requests: N/A
- Total issue authors: 28
- Total pull request authors: 0
- Average comments per issue: 4.28
- 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: about 22 hours
- Average time to close pull requests: N/A
- Issue authors: 1
- Pull request authors: 0
- Average comments per issue: 2.0
- Average comments per pull request: 0
- Merged pull requests: 0
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- mmokrejs (3)
- rgranit (2)
- iadamo1 (2)
- raw937 (2)
- majogomezhughes (2)
- callumparr (2)
- iquasere (2)
- lokeshbio (1)
- ViriatoII (1)
- Yyeserin (1)
- wya97 (1)
- Phagee (1)
- RominaAugustin (1)
- nr0cinu (1)
- seven1112233 (1)
Pull Request Authors
Top Labels
Issue Labels
question (24)
enhancement (6)
bug (3)
invalid (2)
Pull Request Labels
Packages
- Total packages: 1
-
Total downloads:
- pypi 44 last-month
- Total docker downloads: 9
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 9
- Total maintainers: 1
pypi.org: demultiplex
Demultiplex any number of FASTA or a FASTQ files based on a list of barcodes
- Homepage: https://github.com/jfjlaros/demultiplex
- Documentation: https://demultiplex.readthedocs.io/
- License: MIT
-
Latest release: 1.2.2
published over 4 years ago
Rankings
Docker downloads count: 3.7%
Dependent packages count: 10.1%
Stargazers count: 11.9%
Average: 13.6%
Forks count: 15.4%
Downloads: 19.0%
Dependent repos count: 21.6%
Maintainers (1)
Last synced:
6 months ago
Dependencies
docs/requirements.txt
pypi
- docutils ==0.17.1
- sphinx-argparse *
- sphinx-autodoc-typehints *