Fig. 1

Typical workflow for analysing a chromatin interaction dataset. A workflow may involve investigating which distal regions a gene of interest is interacting with, or may involve summarising the number and types of interactions a set of regions is involved in. In order to accomplish this, the relevant data needs to be imported into R, filtered appropriately, annotated with information on genes and/or regions and interrogated. During this process, a researcher can visualise the imported data, focusing either on genome-wide or locus-specific features. Finally, the data can be exported for use by other software packages. Methods defined in GenomicInteractions that can be used to perform each task are shown in italics