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https://github.com/campbio/experimentsubset

Manages subsets of data with Bioconductor Experiment objects

https://github.com/campbio/experimentsubset

Science Score: 13.0%

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Repository

Manages subsets of data with Bioconductor Experiment objects

Basic Info
  • Host: GitHub
  • Owner: campbio
  • License: mit
  • Language: R
  • Default Branch: master
  • Size: 441 KB
Statistics
  • Stars: 8
  • Watchers: 2
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created almost 6 years ago · Last pushed almost 5 years ago

https://github.com/campbio/ExperimentSubset/blob/master/ 

# ExperimentSubset
[![R-CMD-check](https://github.com/campbio/ExperimentSubset/workflows/R-CMD-check/badge.svg)](https://github.com/campbio/ExperimentSubset/actions)
[![Codecov test coverage](https://codecov.io/gh/campbio/ExperimentSubset/branch/master/graph/badge.svg)](https://codecov.io/gh/campbio/ExperimentSubset?branch=master)

## Introduction
`ExperimentSubset` package enables users to perform flexible subsetting of Single-Cell data that comes from the same experiment as well as the consequent storage of these subsets back into the same object. It offers the same interface to the users as other `Experiment` classes but with additional subset support. More details about the package are available in the package vignette.

## Supported Experiment Classes
1. SummarizedExperiment
2. RangedSummarizedExperiment
3. SingleCellExperiment
4. TreeSummarizedExperiment
5. SpatialExperiment

## Installation
To install the latest version of `ExperimentSubset` from GitHub using `devtools`:
```
library(devtools)
install_github("campbio/ExperimentSubset")
```

Or download the release version from Bioconductor:
https://bioconductor.org/packages/release/bioc/html/ExperimentSubset.html

## Citation
Irzam Sarfraz, Muhammad Asif, Joshua D Campbell, ExperimentSubset: an R package to manage subsets of Bioconductor Experiment objects, Bioinformatics, 2021;, btab179, https://doi.org/10.1093/bioinformatics/btab179

Owner

  • Name: campbio
  • Login: campbio
  • Kind: organization

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Dependencies

DESCRIPTION cran
  • R >= 4.0.0 depends
  • SingleCellExperiment * depends
  • SpatialExperiment * depends
  • SummarizedExperiment * depends
  • TreeSummarizedExperiment * depends
  • Matrix * imports
  • S4Vectors * imports
  • methods * imports
  • BiocStyle * suggests
  • TENxPBMCData * suggests
  • airway * suggests
  • covr * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • scater * suggests
  • scds * suggests
  • scran * suggests
  • stats * suggests
  • testthat * suggests