https://github.com/insightsengineering/teal.modules.hermes

RNA-seq analysis modules to add to a teal application
https://github.com/insightsengineering/teal.modules.hermes

modules r rna-seq-analysis shiny

Last synced: about 1 year ago
JSON representation

RNA-seq analysis modules to add to a teal application

• Host: GitHub
• URL: https://github.com/insightsengineering/teal.modules.hermes
• Owner: insightsengineering
• License: other
• Created: 2021-07-22T13:15:20.000Z (almost 5 years ago)
• Default Branch: main
• Last Pushed: 2025-04-11T07:19:45.000Z (about 1 year ago)
• Last Synced: 2025-04-11T09:15:58.314Z (about 1 year ago)
• Topics: modules, r, rna-seq-analysis, shiny
• Language: R
• Homepage: https://insightsengineering.github.io/teal.modules.hermes/
• Size: 21.9 MB
• Stars: 7
• Watchers: 18
• Forks: 1
• Open Issues: 9
• Metadata Files:
  • Readme: README.md
  • Changelog: NEWS.md
  • Contributing: .github/CONTRIBUTING.md
  • License: LICENSE
  • Code of conduct: .github/CODE_OF_CONDUCT.md
  • Security: SECURITY.md

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README

          
# teal.modules.hermes: Teal Modules for RNAseq Data Analysis

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## What is what

### What is `teal`?

`teal` is a shiny-based interactive exploration framework for analyzing clinical trials data. `teal` currently provides a dynamic filtering facility and diverse data viewers. `teal` shiny applications are built using standard [shiny modules](https://shiny.rstudio.com/articles/modules.html).

See [`teal` page](https://insightsengineering.github.io/teal/) for more details.

### What is `hermes`?

`hermes` facilitates preprocessing, analyzing, and reporting of RNA-seq data.

The core functionality is built on the `BioConductor` ecosystem, especially the `SummarizedExperiment` class from which the `HermesData` class inherits.

See the [vignette](https://insightsengineering.github.io/hermes/articles/hermes.html) for more details.

### So what is then `teal.modules.hermes`?

`teal.modules.hermes` provides `teal` modules (which can be used as part of any `teal` app), for interactive RNA-seq data analysis using `hermes`. Again it is heavily built on the `BioConductor` classes, in particular `MultiAssayExperiment` (MAE) which is expected to contain the `HermesData` experiments.

## Installation

```r

# stable versions

# install.packages("pak")

pak::pkg_install("insightsengineering/teal.modules.hermes@*release")

# beta versions

# install.packages("pak")

pak::pkg_install("insightsengineering/teal.modules.hermes")

```

See package vignettes `browseVignettes(package = "teal.modules.hermes")` for usage of this package.

## Stargazers and Forkers

### Stargazers over time

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### Stargazers

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### Forkers

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