Changes in version 1.11.13                       

BUG FIXES

    o   Normalization: "Sum by columns" has been modified to provide
	log-abundances compatibles with the other treatments. It can be
	done "for each condition independantly" or "globaly".

NEW FEATURES

    o   Descriptive statistics: The expression datasets are colored
	w.r.t the nature of missing value (POV or MEC) even when the
	value has been imputed

    o   Filtering: Manage designs with more than 2 conditions and with
	conditions containing different number of samples

    o   Filtering: UI more user friendly for the string-based filtering
	(Tab 2)

    o   Normalization: A few modifications in the UI and

    o   Imputation (protein level): Distinction between missing values
	on an entire condition (Missing on the Entire Condition) and
	the other ones (Partially Observed Value)

    o   Imputation (protein level): for the POV, it is possible to use
	SLSA which take into account the experimentaldesign
	experimental

    o   Imputation (protein level): imputations are all processed
	condition by condition

    o   Differential analysis: All tests can process datasets with
	conditions of different number of samples

    o   Differential analysis: Limma takes into account all the
	hierarchical experimental designs

    o   GO analysis: Add the GeneID nomenclature.

                       Changes in version 1.11.4                        

BUG FIXES

    o   A bug in the string-based filtering tool was fixed. The case
	where an entity could be both contaminants and reverse was not
	takien into account.This lead to wrong number in the plot.

    o   Correction of the beahviour of the table in the experimental
	design (convert Data tool). When the user copy-paste some lines
	it may add unneeded rows. These rows can be deleted with an
	option in the contextual menu.

                       Changes in version 1.9.15                        

BUG FIXES

    o   When the aggregation step has been performed, the interface
	switches to the first tab of the 'Descriptive Statistics' in
	order to view informations aout the new dataset (the protein
	one).

    o   Implementation of a parallel version of the function which
	saves the (new) protein dataset after the aggregation step.

    o   Disable the extra row appearing in the metadata table when
	convertinga text file to a MSnSet file.

    o   Disable the extra row appearing in the metadata table when
	convertinga text file to a MSnSet file.

    o   A new package (readxl) is used to read xls or xlxs files. In
	certain circumstances, the functions of the previsous package
	openxlsx is not able to decode properly Excel files.

    o   When converting a new (text or Excel) file in Prostar : the
	missing values were not registered as expected. Especially,
	they did not appear in blue in the table above the volcanoplot.
	Bug fixed

    o   A bug occured when the user load successively several datasets
	in Prostar. The previous ones were note correctly erased and
	this has lead to side effects. This bug is now fixed

NEW FEATURES

    o   Enhancement of the string-based filtering UI

    o   The automatic generation of an analysis report has been
	integrated in the Dataset Manager (menu 'Export'). It allows
	the user to download plots and parameters used in Prostar ont
	their dataset.

    o   Added a Gene Ontology (GO) analysis module in Data Processing.
	This module allows to perform GO grouping and GO Enrichment.

    o   Several plots are now based on the package highcharter which is
	a wrapper to the highcharts graphical library. It provides
	interactivity with the user.