Changes in version 0.99.11                       

  - new function aggregateAcrossCells has been added, which is
    implemented in c++ and makes run time for calculateP2G much shorter.

                       Changes in version 0.99.5                        

  - new function addLogFC which adds log fold changes of gene expression
    to regulons and significance statistics for differential gene
    expression
  - cellNum argument to calculateP2G set by default to 100 (previously
    it was 200).
  - in pruneRegulon the check to the uniqueness of gene names has been
    added.

                       Changes in version 0.99.0                        

Version number downgraded to 0.99.0 to meet Bioconductor requirements.

                       Changes in version 0.98.0                        

commit 12fabd3278b76711f4b2cbdcaca6794a918ffd83

  - transcription factor motif databeses used by addMotifScore function
    (human_pwms_v1, and mouse_pwms_v1) were replaced wih the new ones
    (human_pwms_v2, mouse_pwms_v2) which are up-to-date.

BUG FIX

  - clusters vector provided to the addWeights and pruneRegulon
    functions is checked for the presence of NA values. If they are
    present the function stops preventing segmentation fault and session
    abortion.

                       Changes in version 0.9.12                        

  - in calculateP2G staring position of the gene has been corrected.