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  3. ChIP-seq with Bioconductor in R

Exercise

Plotting a region in detail

It's your turn to plot a genomic region with Gviz. All data in this exercise are from chromosome 20 of a single sample. An ideogram of chromosome 20 has been created for you and is available as ideogram. The mapped reads have already been converted to coverage data. This information is available as a GRanges object called cover_ranges. Peak calls in the region you will be plotting are stored in the peak_calls object.

It may take a moment to load all required data and R packages for this exercise. Please be patient.

Instructions

100 XP
  • Create annotation tracks for peak calls.
  • Create a data track for read coverage.
  • Display the plot, showing from top to bottom, an ideogram, coverage track, track of peak calls, and an axis displaying the genomic position.