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SVP

https://github.com/yulab-smu/svp

Science Score: 13.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ○
    .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (7.9%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: YuLab-SMU
  • License: gpl-3.0
  • Language: R
  • Default Branch: main
  • Homepage: https://yulab-smu.top/SVP/
  • Size: 7.24 MB
Statistics
  • Stars: 9
  • Watchers: 4
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created almost 3 years ago · Last pushed about 1 year ago
Metadata Files
Readme Changelog License

README.Rmd 

---
output: 
  md_document:
    variant: gfm
html_preview: false
---



# SVP: Predicting cell states and their variability in single-cell or spatial omics data

```{r, echo=FALSE, results="hide", message=FALSE}
library(badger)
```

## :newspaper: Description

```{r, comment="", echo=FALSE, results='asis'}
cat(packageDescription('SVP')$Description)
```

## :writing_hand: Author

[Shuangbin Xu](https://github.com/xiangpin) and [Guangchuang Yu](https://guangchuangyu.github.io)

School of Basic Medical Sciences, Southern Medical University

## :arrow_double_down: Installation

```r
#It can be installed via GitHub.
if (!requireNamespace("remotes", quietly=TRUE))
    install.packages("remotes")
remotes::install_github("YuLab-SMU/SVP")

#Once Bioconductor 3.21 is released, it can be installed as follows.
if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")
BiocManager::install("SVP")
```

To enhance performance, it is **strongly recommended** to connect your R BLAS library with the 
[OpenBLAS](https://github.com/OpenMathLib/OpenBLAS) library for matrix calculations.
This can be accomplished using the [ropenblas](https://prdm0.github.io/ropenblas/) package.
Or you can install [OpenBLAS](https://github.com/OpenMathLib/OpenBLAS) and link the library 
to R BLAS library by `ln -s your_openblas_installed_path_libopenblas.so your_R_install_path_libRblas.so`
manually.

## :sparkling_heart: Contributing

We welcome any contributions! By participating in this project you agree to abide
by the terms outlined in the [Contributor Code of Conduct](CONDUCT.md).

Owner

  • Name: Bioinformatics Group @ SMU
  • Login: YuLab-SMU
  • Kind: organization
  • Email: gcyu1@smu.edu.cn
  • Location: Guangzhou

Research group led by Prof. Guangchuang Yu in School of Basic Medical Sciences, Southern Medical University

GitHub Events

Total
  • Watch event: 3
  • Delete event: 2
  • Push event: 30
  • Create event: 2
Last Year
  • Watch event: 3
  • Delete event: 2
  • Push event: 30
  • Create event: 2

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 2
  • Total pull requests: 0
  • Average time to close issues: 6 months
  • Average time to close pull requests: N/A
  • Total issue authors: 1
  • Total pull request authors: 0
  • Average comments per issue: 1.0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • 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
View more stats
Top Authors
Issue Authors
  • xiangpin (1)
Pull Request Authors
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 1,828 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 3
  • Total maintainers: 1
bioconductor.org: SVP

Predicting cell states and their variability in single-cell or spatial omics data

  • Versions: 3
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 1,828 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 30.3%
Average: 41.0%
Downloads: 92.7%
Maintainers (1)
xshuangbin@163.com
Last synced: 10 months ago

Dependencies

DESCRIPTION cran
  • R >= 2.10 depends
  • BiocGenerics * imports
  • BiocParallel * imports
  • DelayedMatrixStats * imports
  • Matrix * imports
  • Rcpp * imports
  • RcppParallel * imports
  • S4Vectors * imports
  • SingleCellExperiment * imports
  • SpatialExperiment * imports
  • SummarizedExperiment * imports
  • cli * imports
  • dplyr * imports
  • fastmatch * imports
  • methods * imports
  • pracma * imports
  • rlang * imports
  • stats * imports
  • withr * imports
  • BiasedUrn * suggests
  • BiocNeighbors * suggests
  • broman * suggests
  • igraph * suggests
  • irlba * suggests
  • knitr * suggests
  • ks * suggests
  • rmarkdown * suggests
  • testthat >= 3.0.0 suggests
.github/workflows/rworkflows.yml actions
  • neurogenomics/rworkflows master composite