Science Score: 36.0%
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
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✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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✓Committers with academic emails
1 of 3 committers (33.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (11.4%) to scientific vocabulary
Last synced: 10 months ago
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JSON representation
Repository
Spatial Omics Structure Analysis (sosta)
Basic Info
- Host: GitHub
- Owner: sgunz
- License: other
- Language: R
- Default Branch: devel
- Homepage: https://sgunz.github.io/sosta/
- Size: 16.9 MB
Statistics
- Stars: 1
- Watchers: 2
- Forks: 0
- Open Issues: 3
- Releases: 0
Created over 2 years ago
· Last pushed 11 months ago
Metadata Files
Readme
Changelog
License
README.Rmd
---
output: github_document
---
```{r, include = FALSE}
knitr::opts_chunk$set(
collapse = TRUE,
comment = "#>",
fig.path = "man/figures/README-",
out.width = "100%"
)
```
# Spatial Omic Structure Analysis
`sosta` (spatial omics structure analysis) is a framework to reconstruct, characterize and compare spatial structures from spatial omics data.
`sosta` builds on existing R packages for spatial analysis such as `spatstat`, `sf` and the [Bioconductor](https://bioconductor.org/) environment by integrating with packages `SpatialExperiment` and `SpatialFeatureExperiment`, which facilitates the implementation of additional custom metrics that fit the needs of users.
## Installation
You can install the development version of `sosta` from [GitHub](https://github.com/) with:
``` r
# install.packages("devtools")
devtools::install_github("sgunz/sosta")
```
## Disclaimer
This package is still under active development.
## Feedback
We are happy to get your feedback. Please send it via email to [Samuel Gunz](https://www.mls.uzh.ch/en/research/robinson/groupmembers/samuel-gunz.html) or open a issue on [GitHub](https://github.com/sgunz/sosta/issues).
Owner
- Name: Samuel Gunz
- Login: sgunz
- Kind: user
- Location: Zurich
- Company: University of Zurich
- Repositories: 1
- Profile: https://github.com/sgunz
PhD Student in Statistical Bioinformatics @UZH
GitHub Events
Total
- Issues event: 1
- Delete event: 2
- Issue comment event: 3
- Member event: 1
- Push event: 47
- Pull request event: 6
- Create event: 5
Last Year
- Issues event: 1
- Delete event: 2
- Issue comment event: 3
- Member event: 1
- Push event: 47
- Pull request event: 6
- Create event: 5
Committers
Last synced: 10 months ago
Top Committers
| Name | Commits | |
|---|---|---|
| sgunz | s****z@u****h | 84 |
| Mark Robinson | m****n@m****h | 5 |
| A Wokaty | a****y@s****u | 2 |
Committer Domains (Top 20 + Academic)
Packages
- Total packages: 1
-
Total downloads:
- bioconductor 1,928 total
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 2
- Total maintainers: 1
bioconductor.org: sosta
A package for the analysis of anatomical tissue structures in spatial omics data
- Homepage: https://github.com/sgunz/sosta https://sgunz.github.io/sosta/
- Documentation: https://bioconductor.org/packages/release/bioc/vignettes/sosta/inst/doc/sosta.pdf
- License: GPL (>= 3) + file LICENSE
-
Latest release: 1.0.1
published 12 months ago
Rankings
Dependent repos count: 0.0%
Dependent packages count: 30.3%
Average: 40.7%
Downloads: 91.7%
Maintainers (1)
Last synced:
11 months ago
Dependencies
.github/workflows/pkgdown.yaml
actions
- JamesIves/github-pages-deploy-action v4.5.0 composite
- actions/checkout v4 composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-r-dependencies v2 composite
DESCRIPTION
cran
- EBImage * imports
- SpatialExperiment * imports
- SpatialFeatureExperiment * imports
- dplyr * imports
- ggplot2 * imports
- patchwork * imports
- sf * imports
- smoothr * imports
- spatstat.explore * imports
- spatstat.geom * imports
- stats * imports
- terra * imports
- BiocStyle * suggests
- ggfortify * suggests
- ggspavis * suggests
- imcdatasets * suggests
- knitr * suggests
- rmarkdown * suggests
- tidyr * suggests