DNase hypersensitive sites (HSSs) from ENCODE data

Within the group Regulation there is a large list of tracks, many from ENCODE (drop-down box). For this example we have chosen DNase Clusters, which has only one table available: "wgEncodeRegDnaseClustered". In general when choosing a table, clicking on the "describe table schema" button (blue arrow) will tell you more about the table you are selecting, as well as a description of what data and methods were used for the track as a whole. The default format for sending data to Galaxy is BED. This is typically the best format for tables with genomic positions, since it allows doing many genomic operations in Galaxy.

Once the options are selected, click the "get output" button. For BED output, an intermediate page then appears with options for how to return the intervals (not shown). Just leave these at their defaults and click the "Send query to Galaxy" button.