Pyranges

Fixes:
- fix creating duplicate indexes in pyrange apply both
- fix regression where joining unstranded and stranded pyrange did not make a stranded pyrange
- default was strand=False for a few methods, should have been None (i.e. autodetect)
- read_bed now handles gzipped bed (if the file has the .gz extension)
- now able to print untraditional strands which are not strings
- fix drop when "Strand" is part of what is to be dropped
- more robust checking if column is in gr

Additions:
- print functions take formatting-argument {"Start": "{:,}"}

Changes:
- print shows sorted stranded data in Start/End order
- print dynamically selects number of untraditional strands and hidden columns to display
- read_bed now takes nrows arg
- now assertion is raised if trying to drop "Chromosome", "Start" or "End" (instead of ignoring)
- to_bed, to_gtf, to_csv now take compression argument ("infer" by default)
- to_csv writes the header as default

Additions:
- pr.itergrs added to iterate over the dfs from multiple pyranges at the same time

Changes:
- pybigwig and bamread are optional dependencies that need to be manually installed (like ray)

Additions:
- pr.random(n=1000, length=100, chromsizes=None, strand=True) creates a random PyRanges from a PyRanges of chromosome sizes.

Changes:
- make __iter__ return natsorted items

Removals:
- insert. use join instead

Fixes:
- bug in boolean indexing due to __iter__ returning wrong sort order

Hotfix:
- bug in assign (strand=False, by default, not None)

Additions:
- head(n=8)
- tail(n=8)
- sample(n=8)
- set_columns(new_names) to set new column names
- argument like to drop, which takes string describing regex (gr.drop(like="_left|_right"))
- add count (number of intervals) to merge and merge_by

Fixes:
- 5X faster boolean indexing
- fix some bugs in features.introns when data was missing

Changes:
- coverage renamed to_rle
- if drop used without argument, not dropping Strand by default

hotfixes