https://github.com/bioconductor-source/simpleseg
Science Score: 13.0%
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
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○Academic publication links
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○Scientific vocabulary similarity
Low similarity (8.8%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: bioconductor-source
- Language: R
- Default Branch: devel
- Size: 104 MB
Statistics
- Stars: 0
- Watchers: 2
- Forks: 0
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
simpleSeg
Overview
simpleSeg provides a structured pipeline for segmentation of cellular tiff stacks and the normalization of features, priming cells for classification / clustering.
A brief preview of simpleSeg can be found here, and integration with further analysis is explained in detail here.
Installation
Install the package from Bioconductor.
```r if (!requireNamespace("BiocManager", quietly = TRUE)) { install.packages("BiocManager") }
BiocManager::install("simpleSeg") ```
Otherwise, install the development version from Github.
```r
Install the development version from GitHub:
install.packages("devtools")
devtools::install_github("SydneyBioX/simpleSeg") library(simpleSeg) ```
Installation Problems
Usually caused by non-R dependencies being unavailable. Ensure that the following packages are installed on your system.
fftw, gdal, fortran, arrow
Submitting an issue or feature request
simpleSeg is still under active development. We would greatly appreciate any and
all feedback related to the package.
- R package related issues should be raised here.
- For general questions and feedback, please contact us directly via ellis.patrick@sydney.edu.au.
Author
- Alexander Nicholls
- Ellis Patrick - @TheEllisPatrick
- Nicolas Canete
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
- BiocParallel * imports
- EBImage * imports
- S4Vectors * imports
- SummarizedExperiment * imports
- cytomapper * imports
- grDevices * imports
- methods * imports
- spatstat.geom * imports
- stats * imports
- terra * imports
- BiocStyle * suggests
- ggplot2 * suggests
- knitr * suggests
- testthat >= 3.0.0 suggests