Tracks
A track is the fundamental building block for NGS analysis in the CLC Genomics Workbench. The idea behind tracks is to provide a unified framework for the visualization, comparison and analysis of genome-scale studies such as whole-genome sequencing or exome resequencing projects and a variety of different -Seq data (i.e. ChIP-Seq, DNAse-Seq).24.1
In tracks, all information is tied to genomic positions. A central coordinate-system is provided by a reference genome, which allows that different datasets can be seen and analyzed together. Different kinds of tracks exist: a reference genome sequence (
), a set of genes (
), a coverage graph (
), a read mapping (
) or variants from variant calling (
). This chapter explains how to visualize tracks, how to retrieve reference data and finally how to perform generic comparisons between tracks.
Figure 24.1: A single mapping read-track opened, displaying reads and coverage. On the top right, the button for creating a Track List is visible. On the right is the SidePanel.
For comparison tools specific to resequencing and variants, please see Resequencing.
Footnotes
- ... DNAse-Seq).24.1
- The track concept was first introduced with the Genomics Gateway plugin in 2011 and made an integral part of the CLC Genomics Workbench 5.5 release.
Subsections
- Track lists
- Retrieving reference data tracks
- Merging tracks
- Converting data to tracks and back
- Annotate and filter tracks
- Creating graph tracks