ChIP-seq Review

R ile Bioconductor kullanarak ChIP-seq

Peter Humburg

Statistician, Macquarie University

Review: Importing data

Load peak calls

peaks <- import.bed(peak_file, genome="hg19")

Create a BamViews object

bam_views <- BamViews(bam_file, bamRanges=peaks)

Load the reads

reads <- readGAlignments(bam_views)

Time to practice on your own!
Find datasets to explore at GEO https://www.ncbi.nlm.nih.gov/geo/.
The data you worked with in this course is available under accession GSE65478.
Bioconductor website: https://bioconductor.org/
Bioconductor support: https://support.bioconductor.org/

R ile Bioconductor kullanarak ChIP-seq