Big release that changes the functionality of hic2cool pretty significantly.
Commands are now run with hic2cool <mode>.
Modes are convert, update, and extract-norms. The last of those replaces the hic2cool_extractnorms.py script
convert not does NOT invert hic normalization vectors. Missing values in vectors are represented as NaNs
update can be used to un-invert cooler weights from hic2cool files made from previous versions. File metadata is used to keep track of software versions and what has/hasn't been updated.
extract-norms has been refactored for speed and usability within the greater hic2cool framework
commands now have much better help information
Lots of new tests
README update that should cover a lot of the important stuff
Big release that changes the functionality of hic2cool pretty significantly.
hic2cool <mode>.convert,update, andextract-norms. The last of those replaces thehic2cool_extractnorms.pyscriptconvertnot does NOT invert hic normalization vectors. Missing values in vectors are represented asNaNsupdatecan be used to un-invert cooler weights from hic2cool files made from previous versions. File metadata is used to keep track of software versions and what has/hasn't been updated.extract-normshas been refactored for speed and usability within the greater hic2cool framework