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Reading BED files

In this exercise, you will load peak calls from a BED file and use the information about peak locations to extract reads that overlap with the peaks from a BAM file.

Diese Übung ist Teil des Kurses

<Kurs>ChIP-seq with Bioconductor in R</Kurs>
Kurs ansehen

Übungsanweisungen

  • Use the import.bed function to load peak calls from chr20_peaks.
  • Use these peak calls to create a BamViews object for chr20_bam.
  • Load the reads overlapping with the peak calls.

Interaktive praktische Übung

Versuche dich an dieser Übung, indem du diesen Beispielcode vervollständigst.

# Load peak calls from chr20_peaks
peaks <- ___(chr20_peaks)

# Create a BamViews object
bam_views <- ___(___, bamRanges=peaks)

# Load the reads
reads <- ___(___)
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