4. Whats’ new, what has changed

Revision 0.4.4:
  • add missing MANIFEST to include requirements used in bioconda
Revision 0.4.3:
  • move all converters related code (now in biokit/bioconvert project)
  • Fixed deprecated issues in stats/mixture (pylab.normpdf changed to scipy.stats.norm.pdf
  • Fix doc gallery
  • BUG: fix fasta module test and cleanup FASTA class
Revision 0.4.2:
  • UPDATE: starting converter tool in converter sub-package
  • UPDATE: replace axibg with facecolor (matplotlib deprecated name)
  • REFACTORING: rtools sub-package.should not affect user interface
  • BUG: fixed corrplot layout due to new matplotlib API and new Pandas API
Revision:

0.4.1

  • BUG: fix rtools sub-packages for Python3 portage
Revision:

0.4.0

  • Stable version on bioconda (remove sphinx-gallery from dependencies since it is only used for the documentation.
Revision:

0.3.4

  • remove stats_dev sub_directory
Revision:

0.3.3

  • EM class has a new plot function so that a plot can be run without doing the estimation but by providing the parameter of the model. This is a better model/data/view abstraction.
  • Fix tests in documentation
Revision:

0.3.2:

  • remove deprecated warning
Revision:

0.3.1:

  • Update mixture.EM method to speedup the code by factor 4
Revision:

0.3.0:

  • Cleanup and doc update
  • Update notebooks to be py3.5 compatible
  • Some API changes in the Taxonomy module used in Sequana package
Revision 0.2.0:

  • NEWS

    • add boxplot module.
Revision 0.1.4:
  • BUG FIXES: cleanup MANIFEST
Revision 0.1.3:

  • BUG FIXES:

    • a py3 typo.
    • fixing complexes module
    • remove useless db package
Revision 0.0.7:
  • NEWS
    • add taxonomy module.
    • add goid module.
    • Fixed bunch of Python3 issues. most important in rtools packages to use Popen instead of popen4 and manipulate bytes vs strings.
    • All tests passes under Python2.7 and Python3.4
Revision 0.0.6:
  • CHANGES
    • viz package:
      • refactored most of the functions/classes to be have more consistent input data for the constructor and more consistent parameters for the plot() methods.
      • Hist2d is now called Hist2D
  • BUG FIXES
  • NEWS
    • add new module in viz package: hinton, core (to factorise code)
    • add new notebooks related to the viz package.