Reuse plot codes of arcs, hicpeaks

[zhqu1148980644]

The data format of inputs of Arcs and Hicpeaks are very similar, if there is a way to reuse the plotting code in custom tracks instead of creating an intermediate bed/pairs file.

It's common to generate python data like [(start, end), ...] when calling custom loops in python.

And this situation is quite general, users only care about how to produce the final loop results(representation of ranges) for a specific genomic range.

possible solutions:

• extract plot code outside of each track,
• move plot code(may have different types but are in similar format) down into the base class, and upper classes handle how to convert the raw data(bedpe/pairs/python object) into inputs of plot function in the base class.

[Nanguage]

Yes indeed, the arcs and hicpeaks has similar data structure, just different form of visualization. It's need some intermediate representation, maybe the IntervalTree or pandas.Dataframe is suitable for this, I prefer the Dataframe. It can fast extact the data and can directly store to the csv/tsv file.

For solution, I prefer the second, just like we do in the hicmat.plot and hist.plot. User just inherit them to use, compare to the first solution, it's keep some uniformity in design.

[zhqu1148980644]

first commit:

• d4a97d213d394f0b0ea13079d18a61a8783ca140

report error in gallery and add more test_data

• bda22d34fcd913a5a62caeb49b0bc071f49cb54d
• fa0fd01948aa8934200b9cb353f006abab0b3323

fix error in gallery

• 413179a71bcd5a8df394f9f0b43628230b46e2da

fill docstring for all tracks

• 23 8e5abd1dd8753fee4812c5b010095d286766b104

add/reference custom track in cli mod

• 715d3756a0076bed8dbaf49966f3eeab36b5843f