Changes in version 2.0.5                        

Added new flag to the function cleanPlots() to suppress evaluation of
the PCA on the normalised data. In particular, this allows to reduce
significantly time spent within the function checkClusterUniformity()

COTAN 2.0.4

Improved mergeUniformCellsClusters(): now it attempts to merge more
clusters pairs

Now errors in the seuratClustering() function are interpreted as
remaining cells not-clustered "-1". This applies mostly to cases when
Seurat finds only singlets

COTAN 2.0.3

Fixed Validity Function in AllClasses.R

COTAN 2.0.2

Fixed bug in proceedToCoex() in cases when saveObj == TRUE

COTAN 2.0.1

Updated README.md and NEWS.md

Renamed methods dealing with housekeeping genes and fully-expressed
cells to use the more proper names fully-expressed genes and
fully-expressing cells

COTAN 2.0.0

Final release in Bioconductor 3.17

COTAN 1.99.4

Solved remaining documentation warnings

COTAN 1.99.3

Updated the vignette, README.md and NEWS.md

COTAN 1.99.2

Dropped second vignette: will be merged in the other one...

COTAN 1.99.1

Minor bug fixes and new function clustersMarkersHeatmapPlot()

COTAN 1.99.0

Included new functionalities for Bioc 2.17 release:

  - created a new COTAN class to replace the old scCOTAN: this class
    provides internal invariants along a wide host of accessors that
    allows users to avoid peeking inside the class

  - made a new multi-core implementation of the model parameters
    estimations and COEX calculations that achieves much higher speeds.

  - added new functionality about gene clusters starting from given
    markers lists

  - added new functionality about uniform cell clustering based on the
    maximum GDI level in the cluster

  - added function to get a differential expression estimation for each
    cluster against background

  - added function to get an enrichment score for each cluster given a
    list of markers specific for the cells' population

  - added plots to asses data-set information at cleaning stage

COTAN 0.99.13

After official release. PCA function changed to avoid basilisk and
Python.

COTAN 0.99.12

Release before the official release of Bioc 3.15. Main changes:

  - The way in which the COEX matrix is estimated and stored is changed
    to occupy less space and run faster.

COTAN 0.99.10

Initial Bioconductor release