inst/seqplots/www/help/Install_apps.md

In Przemol/seqplots: An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and heatmaps

Installation - App for Mac, Win and Linux

The App bundle is an easy way to use SeqPlots for macOS, Win and Linux. It contains all R binaries and packages that SeqPlots depends on. Additionally, test tracks and genome annotations, and reference sequences for Drosophila melanogaster and Caenorhabditis elegans are included. Sequences for other organisms can be downloaded using a graphical user interface - follow the instructions here: http://przemol.github.io/seqplots/#genomes-managment

System requirements

• Mac OS X 10.9 (Mavericks) or higher
• Windows 7 or higher (64bit)
• Ubuntu 16.04 (possibly other distributions, not tested)

Installation

Downbaload and installer from: https://github.com/Przemol/seqplots_electron/releases

Follow the installation instructions.

How to start on macOS (bypass Gatekeeper warning)

Start SeqPlots from Applications. If run for the first time the operating system security notice might be shown.

To run the application right-click on SeqPlots icon and choose "Open", followed by clicking "Open" button in popup window. This need to be done only once, later SeqPlots can be started as usual Mac OS X application.

Package content

• The Electron framework (https://github.com/electron/electron)
• Platypus (http://www.sveinbjorn.org/platypus) wrapper
• R (http://www.r-project.org/)
• SeqPlots dependency packages (including Shiny, rtracklayer and BSgenome)
• Full genome sequences
• SeqPlots package

Przemol/seqplots documentation built on May 14, 2022, 6:47 a.m.