https://github.com/chronchi/ember
Universal framework for molecular subtype and pathway scoring in breast cancer
Science Score: 26.0%
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
Found 6 DOI reference(s) in README -
○Academic publication links
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (6.6%) to scientific vocabulary
Repository
Universal framework for molecular subtype and pathway scoring in breast cancer
Basic Info
- Host: GitHub
- Owner: chronchi
- License: gpl-3.0
- Language: R
- Default Branch: main
- Size: 97.4 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
Molecula EMBeddeR: ember
A framework for precision medicine in breast cancer. Calculates molecular subtype and provides pathway scores for samples individually.
Installation
To install the package run R and the following lines:
``` r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")
BiocManager::install("chronchi/ember") ```
Basic usage
Check the tutorial page at chronchi.github.io/ember/
Citation
If you used the package (and enjoyed it!), use the following for citation:
Ronchi, C., Haider, S. & Brisken, C. EMBER creates a unified space for independent breast cancer transcriptomic datasets enabling precision oncology. npj Breast Cancer 10, 56 (2024). https://doi.org/10.1038/s41523-024-00665-z
For the bibtex:
@article{Ronchi2024,
title = {EMBER creates a unified space for independent breast cancer transcriptomic datasets enabling precision oncology},
volume = {10},
ISSN = {2374-4677},
url = {http://dx.doi.org/10.1038/s41523-024-00665-z},
DOI = {10.1038/s41523-024-00665-z},
number = {1},
journal = {npj Breast Cancer},
publisher = {Springer Science and Business Media LLC},
author = {Ronchi, Carlos and Haider, Syed and Brisken, Cathrin},
year = {2024},
month = jul
}
Owner
- Name: Carlos
- Login: chronchi
- Kind: user
- Website: chronchi.github.io
- Repositories: 3
- Profile: https://github.com/chronchi
GitHub Events
Total
- Push event: 1
Last Year
- Push event: 1
Dependencies
- R >= 2.10 depends
- SummarizedExperiment * imports
- dplyr * imports
- ggplot2 * imports
- msigdbr * imports
- singscore * imports
- knitr * suggests
- rmarkdown * suggests