https://github.com/coayala/metabodirect
A comprehensive command-line based pipeline for the analysis of direct injection FT-ICR mass spectrometry data
Science Score: 23.0%
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
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○DOI references
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✓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 (8.8%) to scientific vocabulary
Repository
A comprehensive command-line based pipeline for the analysis of direct injection FT-ICR mass spectrometry data
Basic Info
Statistics
- Stars: 5
- Watchers: 2
- Forks: 2
- Open Issues: 0
- Releases: 3
Metadata Files
README.md
MetaboDirect
A comprehensive command-line based pipeline for the analysis of direct injection FT-ICR mass spectrometry data.
Installation
MetaboDirect can be installed directly from PyPi using:
pip install metabodirect
Additionally it can be installed from source by cloning its GitHub repository
git clone https://github.com/Coayala/MetaboDirect.git
cd MetaboDirect
python setup.py install
MetaboDirect requires Python (3.5 and above), R (4 and above) and Cytoscape (3.8 and above) with the following libraries/modules:
Python
- argparse
- numpy
- pandas
- seaborn
- more-itertools
- py4cytoscape
- statsmodels
R
- tidyverse
- RColorBrewer
- vegan
- ggnewscale
- ggpubr
- KEGGREST
- factoextra
- UpSetR
- pmartR (for normalization tests)
- SYNCSA
- ggvenn
- ggrepel
Cytoscape
- FileTransfer
Usage
Information about the arguments can be obtaining using the option -h/--help
metabodirect -h
For more information please check the User Manual.
Owner
- Name: Christian Ayala-Ortiz
- Login: Coayala
- Kind: user
- Company: @tfaily-lab
- Repositories: 4
- Profile: https://github.com/Coayala
GitHub Events
Total
- Issues event: 3
- Watch event: 1
- Issue comment event: 3
- Push event: 3
- Pull request event: 4
- Fork event: 1
Last Year
- Issues event: 3
- Watch event: 1
- Issue comment event: 3
- Push event: 3
- Pull request event: 4
- Fork event: 1
Committers
Last synced: over 3 years ago
All Time
- Total Commits: 141
- Total Committers: 3
- Avg Commits per committer: 47.0
- Development Distribution Score (DDS): 0.404
Top Committers
| Name | Commits | |
|---|---|---|
| Coayala | c****2@h****m | 84 |
| Coayala | 3****a@u****m | 56 |
| Rory M Flynn | r****o@g****m | 1 |
Issues and Pull Requests
Last synced: almost 2 years ago
All Time
- Total issues: 0
- Total pull requests: 1
- Average time to close issues: N/A
- Average time to close pull requests: about 3 hours
- Total issue authors: 0
- Total pull request authors: 1
- Average comments per issue: 0
- Average comments per pull request: 0.0
- Merged pull requests: 1
- 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
Top Authors
Issue Authors
- skylerharm (2)
- Crispy-shark (1)
Pull Request Authors
- theinfinitegirl (2)
- rmFlynn (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- pypi 196 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 41
- Total maintainers: 1
pypi.org: metabodirect
Analyze FT-ICR-MS data
- Homepage: https://github.com/Coayala/MetaboDirect
- Documentation: https://metabodirect.readthedocs.io/
- License: LICENSE
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Latest release: 1.0.9
published almost 2 years ago
Rankings
Maintainers (1)
Dependencies
- searchtools *
- sphinx_rtd_theme *