See the downloads section for samples from Galaxy.
Interpreting the results at a high level is most easily done using four files. With regards to recovered insertions, refer to the textual and statistical description of insertion recovery. The inserts BED file can be used to visualize the insertions with tools such as the UCSC genome browser. Likewise, CIS calls have two primary files, the CIS summary with both textual and statistical descriptions of the results and a WIG file that can be used for visualization.
These files are highlighted in bold and italicized in the in the command line output structure below. In Galaxy, the visualization files are listed in the history upon completion of TAPDANCE execution and the text summaries are linked to in the HTML index, TAPDANCE Results.
Command line usage and Galaxy usage produce the same results, but the presentation varies a fair amount. From the command line, all final results are included in a new results directory in the directory specified on the command line. Results for CIS calls on all libraries are by default in results/all and results based on available metadata gets placed in results/tag_name. The structure looks like the following:
In Galaxy, the list is trimmed to just the three inputs and three of the most accessibly useful outputs.
TAPDANCE Results in that list is an HTML index with links several of the files listed above as outputs from the command line version.
Here is a preview of the PDF that is generated giving a statistical view of the insertions recovered from the source sequences.
