Pygtftk

Bug Fixes


API/CLI Changes

* Fix 174.

* Fix 173.

Code changes

New Features

Bug Fixes


API/CLI Changes

* Pygtftk now depends on Python 3.9.

Code changes


New Features

Bug Fixes

* Force pillow version betwwen 7.0.0 and 8.3.2

API/CLI Changes


Code changes


New Features

Bug Fixes

* Fix "Index.ravel() returning a np.ndarray is deprecated" in pandas.

* Fix pillow requirements (8.4.0).

* Add requirement for libjpeg-devel installation in build_wheels.sh (pillow requirement).

* Force --no-cache when building docker image for manylinux package.

API/CLI Changes


Code changes


New Features

Bug Fixes


API/CLI Changes


Code changes

* OLOGRAM README has been updated (add bedtools, graphviz and unzip dependency).

* Replace operatorPrecedence with infixNotation when using pyparsing (see 166).

New Features

Bug Fixes

* Fix a bug in histogram drawing (OLOGRAM).

API/CLI Changes


Code changes

* OLOGRAM doc has been updated.

* Added test for Beta distribution fitting.

New Features

* OLOGRAM now gives the p-value for S as fitted through a Beta distribution. However, Beta distributions are harder to fit, since
unavoidable small errors in the estimation of the skewness and kurtosis will propagate. In practice it is preferable to approximate this with a Negative Binomial. This will be explained in the manuscript.