README.Rmd

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output: github_document
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knitr::opts_chunk$set(
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# ProteoViewer

The goal of ProteoViewer is to analyse the peptide intensities in a proteomics 
LC-MS/MS experiment. Besides, it provides visualization for the protein topology,
Post-translational modifications and protein Coverage.

It relies on the [Protter](http://wlab.ethz.ch/protter/start/) API.

## Installation

``` r
# install.packages("devtools")
devtools::install_github("svalvaro/ProteoViewer")
```
## Use the shiny app.

Launch the app locally.

```{r, eval = F}

library(ProteoViewer)

runProteoViewerApp()

```


Or access to it trough the web application hosted at: 
https://proteomics.fgu.cas.cz/ProteoViewer/

## Data

ProteoViewer accepts the `evidence.txt` from [MaxQuant](https://www.maxquant.org/) or the output from 
[Spectronaut](https://biognosys.com/software/spectronaut/)


## Example
![ProteoViewer example](https://github.com/svalvaro/ProteoViewer/blob/master/inst/shinyApp/www/images/shinyDemo.png?raw=true)