pmc-tool
This pipeline was made for my MSc thesis (linking 16&18S marker genes to MAGs)
Science Score: 44.0%
This score indicates how likely this project is to be science-related based on various indicators:
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✓CITATION.cff file
Found CITATION.cff file -
✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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○Academic publication links
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○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (4.2%) to scientific vocabulary
Repository
This pipeline was made for my MSc thesis (linking 16&18S marker genes to MAGs)
Basic Info
Statistics
- Stars: 1
- Watchers: 1
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Thesis_project
This pipeline was made for my MSc thesis (linking 16&18S marker genes to MAGs)
This is a snakemake workflow that uses conda for package management.
General structure of this Repo: ├── .gitignore ├── README.md ├── LICENSE.md ├── workflow │ ├── rules | │ ├── module1.smk | │ └── module2.smk │ ├── envs | │ ├── tool1.yaml | │ └── tool2.yaml │ ├── scripts | │ ├── script1.py | │ └── script2.R │ ├── notebooks | │ ├── notebook1.py.ipynb | │ └── notebook2.r.ipynb │ ├── report | │ ├── plot1.rst | │ └── plot2.rst | └── Snakefile ├── config │ ├── config.yaml │ └── some-sheet.tsv ├── results └── resources
Needs fixing: conda environment for SRA toolkit needs to be configured for the first run. Conda environment for metabat2 expects libdeflate file to be made (Maybe include whole env?)
Owner
- Name: Martijn de Vries
- Login: mvries
- Kind: user
- Repositories: 1
- Profile: https://github.com/mvries
Bioinformagician.
Citation (CITATION.cff)
cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: Martijn
given-names: de Vries
github: https://github.com/mvries/PMC-tool/
title: "PMC-tool"
version: 1.0
date-released: 2023-04-23