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Removed
finaletoolkit.frag.frag_length_bins no longer has the contig_by_contig
option. This never had any functionality.
finaletoolkit.frag.frag_length_bins no longer generates a text-based
histogram.
Fixed
contig_sizes option included for cleavage-profile CLI command.
normalize option for coverage fixed so it no longer normalizes twice
normalize=False for coverage runs much faster
misc typehints and docstrings
Changed
finaletoolkit.frag.frag_length_bins uses a dict based implementation
that is more memory efficient.
finaletoolkit.frag.frag_length_bins and finaletoolkit.frag.frag_length_intervals now take min_length and max_length keyword args to only consider fragments of certain lengths.
flags for frag-length-bins and frag-length-intervals CLI commands updated to match Python API
coverage default argument for normalize changed to False
coverage default argument for scale_factor changed to 1.
Added
finaletoolkit.frag.frag_length_bins can generate a histogram figure