https://github.com/bioconductor-source/scfeatures
Science Score: 26.0%
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Found 2 DOI reference(s) in README -
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○Scientific vocabulary similarity
Low similarity (6.3%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: R
- Default Branch: devel
- Size: 215 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
scFeatures: Multi-view representations of single-cell and spatial data for disease outcome prediction
scFeatures is a tool that generates multi-view representations of single-cell and spatial data through the construction of a total of 17 feature types belonging to the following six categories.
- cell type proportions
- cell type specific gene expressions
- cell type specific pathway expressions
- cell type specific cell-cell interaction (CCI) scores
- overall aggregated gene expressions
- spatial metrics
Installation
The latest scFeatures can be installed using devtools:
library(devtools)
devtools::install_github("SydneyBioX/scFeatures")
Vignettes
Please see https://sydneybiox.github.io/scFeatures/articles/scFeatures_overview.html.
Reference
Cao, Y., Lin, Y., Patrick, E., Yang, P., & Yang, J. Y. H. (2022). scFeatures: multi-view representations of single-cell and spatial data for disease outcome prediction. In O. Vitek (Ed.), Bioinformatics (Vol. 38, Issue 20, pp. 4745–4753). Oxford University Press (OUP). https://doi.org/10.1093/bioinformatics/btac590
Owner
- Name: (WIP DEV) Bioconductor Packages
- Login: bioconductor-source
- Kind: organization
- Email: maintainer@bioconductor.org
- Website: https://bioconductor.org
- Repositories: 1
- Profile: https://github.com/bioconductor-source
Source code for packages accepted into Bioconductor
GitHub Events
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Last Year
Dependencies
- R >= 4.2.0 depends
- AUCell * imports
- BiocParallel * imports
- DT * imports
- DelayedArray * imports
- DelayedMatrixStats * imports
- EnsDb.Hsapiens.v79 * imports
- EnsDb.Mmusculus.v79 * imports
- GSVA * imports
- MatrixGenerics * imports
- Seurat * imports
- SingleCellSignalR * imports
- ape * imports
- cli * imports
- dplyr * imports
- ensembldb * imports
- glue * imports
- gtools * imports
- methods * imports
- msigdbr * imports
- proxyC * imports
- reshape2 * imports
- rmarkdown * imports
- spatstat.explore * imports
- spatstat.geom * imports
- stats * imports
- tidyr * imports
- BiocStyle * suggests
- ClassifyR * suggests
- S4Vectors * suggests
- clusterProfiler * suggests
- knitr * suggests
- org.Hs.eg.db * suggests
- survival * suggests
- survminer * suggests