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shinyDSP

A Shiny App For Visualizing Nanostring GeoMx DSP Data

https://github.com/kimsjune/shinydsp

Science Score: 36.0%

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
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 3 committers (33.3%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (5.1%) to scientific vocabulary
Last synced: 10 months ago · JSON representation

Repository

A Shiny App For Visualizing Nanostring GeoMx DSP Data

Basic Info
Statistics
  • Stars: 1
  • Watchers: 1
  • Forks: 0
  • Open Issues: 0
  • Releases: 0
Created over 1 year ago · Last pushed about 1 year ago
Metadata Files
Readme Changelog License

README.md

shinyDSP

shinyDSP is a Shiny app that lets you interactively visualize Nanostring GeoMx data. Its outputs are highly customizable. It performs differential gene expression analysis and summarizes the results in tables and plots. Please refer to the vignette for details.

Installation

shinyDSP is available on Bioconductor and can be installed with the following:

```r if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")

BiocManager::install("shinyDSP")

To install the development version from Github:

if (!requireNamespace("devtools", quietly = TRUE)) install.packages("devtools")

devtools::install_github("kimsjune/shinyDSP") ```

Usage

r library(shinyDSP) app <- shinyDSP() if (interactive()) shiny::runApp(app)

Owner

  • Login: kimsjune
  • Kind: user

GitHub Events

Total
  • Watch event: 2
  • Push event: 50
  • Pull request event: 1
  • Create event: 6
Last Year
  • Watch event: 2
  • Push event: 50
  • Pull request event: 1
  • Create event: 6

Committers

Last synced: 10 months ago

All Time
  • Total Commits: 75
  • Total Committers: 3
  • Avg Commits per committer: 25.0
  • Development Distribution Score (DDS): 0.04
Past Year
  • Commits: 75
  • Committers: 3
  • Avg Commits per committer: 25.0
  • Development Distribution Score (DDS): 0.04
Top Committers
Name Email Commits
kimsjune s****3@u****a 72
A Wokaty a****y@s****u 2
Joon Kim jk@M****n 1
Committer Domains (Top 20 + Academic)
mac.lan: 1 sph.cuny.edu: 1 uwo.ca: 1

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 0
  • Total pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: 1 minute
  • Total issue authors: 0
  • Total pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: 1 minute
  • Issue authors: 0
  • Pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
Pull Request Authors
  • kimsjune (1)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 1,620 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 2
  • Total maintainers: 1
bioconductor.org: shinyDSP

A Shiny App For Visualizing Nanostring GeoMx DSP Data

  • Versions: 2
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 1,620 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 30.3%
Average: 41.3%
Downloads: 93.7%
Maintainers (1)
skim823@uwo.ca
Last synced: 11 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.5 depends
  • AnnotationHub * imports
  • BiocGenerics * imports
  • ComplexHeatmap * imports
  • DT * imports
  • ExperimentHub * imports
  • S4Vectors * imports
  • SingleCellExperiment * imports
  • SummarizedExperiment * imports
  • bsicons * imports
  • bslib * imports
  • circlize * imports
  • cowplot * imports
  • dplyr * imports
  • edgeR * imports
  • ggplot2 * imports
  • ggpubr * imports
  • ggrepel * imports
  • grDevices * imports
  • grid * imports
  • htmltools * imports
  • limma * imports
  • magrittr * imports
  • pals * imports
  • readr * imports
  • scales * imports
  • scater * imports
  • shiny * imports
  • shinyWidgets * imports
  • shinycssloaders * imports
  • shinyjs * imports
  • shinyvalidate * imports
  • standR * imports
  • stats * imports
  • stringr * imports
  • tibble * imports
  • tidyr * imports
  • utils * imports
  • withr * imports
  • BiocStyle * suggests
  • knitr * suggests
  • rmarkdown * suggests
  • shinytest2 * suggests
  • spelling * suggests
  • svglite * suggests
  • testthat >= 3.0.0 suggests