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Welcome to pyGenomeTracks's documentation!

Standalone program and library to plot beautiful genome browser tracks

pyGenomeTracks aims to produce high-quality genome browser tracks that are highly customizable. Currently, it is possible to plot:

  • bigwig
  • bed/gtf (many options)
  • bedgraph
  • epilogos
  • narrow peaks
  • links
  • Hi-C matrices

Here is a scheme which describe how pyGenomeTracks is working (graphical abstract of Lopez-Delisle et al. 2020):

image

pyGenomeTracks can make plots with or without Hi-C data. The following is an example output of pyGenomeTracks from Ramírez et al. 2017.

image

There are 3 ways for using pyGenomeTracks:

  • Galaxy usage -- the public European Galaxy server let's you use pyGenomeTracks within the familiar Galaxy framework without the need to master the command line
  • command line usage -- simply download and install the tool (see content/installation and content/usage)

Table of content

content/installation content/usage content/citation content/all_tracks content/examples content/possible-parameters content/adding-new-tracks content/releases content/faq