https://github.com/fpaskali/madapp

https://github.com/fpaskali/madapp

Last synced: 3 days ago
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• Host: GitHub
• URL: https://github.com/fpaskali/madapp
• Owner: fpaskali
• License: gpl-3.0
• Created: 2022-04-27T14:18:17.000Z (over 2 years ago)
• Default Branch: main
• Last Pushed: 2023-09-27T16:05:34.000Z (about 1 year ago)
• Last Synced: 2023-09-28T09:39:16.569Z (about 1 year ago)
• Language: R
• Size: 1.04 MB
• Stars: 0
• Watchers: 1
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Code of conduct: CODE_OF_CONDUCT.md

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README

        

#  MADApp

The repository includes the development version of shiny application MADApp

[![License: LGPL v3](https://img.shields.io/badge/License-LGPL%20v3-blue.svg)](https://www.gnu.org/licenses/lgpl-3.0)

[![Project Status: WIP – Initial development is in progress, but there has not yet been a stable, usable release suitable for the public.](https://www.repostatus.org/badges/latest/wip.svg)](https://www.repostatus.org/#wip)

## Installation

MADApp is dependent on following packages

- shiny

- shinyjs

- shinythemes

- fs

- DT

- tidyr

- plotly

- EBImage

They can be installed via

```

install.packages(c("shiny","shinyjs","shinythemes","fs","DT","tidyr","plotly"))

```

Additionaly, the application requires EBImage package which can not be found on CRAN and should be installed from Bioconductor via

```{r, eval = FALSE}

## Install package BiocManager

if(!require(BiocManager)) install.packages("BiocManager")

## Use BiocManager to install EBImage

BiocManager::install("EBImage", update = FALSE)

```

## Start App

The application can be loaded into RStudio and started with Run App command; or from R with the following commands

```{r}

library(shiny)

runApp("R/MADApp.R")

```

## Description

Image analysis (cropping, segmentation, thresholding, feature engineering, plotting, timeseries) of images taken from microarrays.

## Preview

![tab1](preview/preview_1.png)

![tab2](preview/preview_2.png)

![tab3](preview/preview_3.png)

![tab4](preview/preview_4.png)

![tab5](preview/preview_5.png)