VERSION 1.9.4
------------------------
o Added documentation for new data set.

VERSION 1.9.3
------------------------
o New Feature: Added the function IRSnorm, which performs normalisation of
intensities across multiple TMT runs using a common reference sample (Internal
Reference Scale).

VERSION 1.9.2
------------------------
o Bug Fix: Update getContrastResults test reference
o Fix bug in is_validScalingFunction - switch from `are_equal` to `identical`

VERSION 1.9.1
------------------------
o Fix bug in getContrastRestults where file was written to `.txt`, file name 
  should now be correctly formed from the contrast name

VERSION 1.7.3
------------------------
o Fix limits of scale in corrPlot to c(0, 1)
o Fix bug in regress intensities where control columns were not being removed

VERSION 1.7.1
------------------------
o Change Vignette to HTML
o Add textsize argument to corrPlot
o Allow missing values in scaling normalisations

VERSION 1.3.2
------------------------
o Added mergePeptides to NAMESPACE
VERSION 1.3.1
------------------------
o Added mergePeptides function to summarize identical peptides to single peptide for specific protein.

VERSION 1.1.2
------------------------
Updates to vignette to avoid build errors when attempting to connect to Uniprot

VERSION 1.1.1
------------------------
 o Fixed bug in maVolPlot - github Issue 12:
    Previously the 'selectedGenes' argument used GeneSymbols to match genes to
highlight in the plot. Not all accessions are annotated with a GeneSymbol, and 
some GeneSymbols are linked to more than one Accession. This could lead to 
situations where incorrect genes were being highlighted due to duplicate 
entries or NAs. The function now accepts and matches to accessions instead - 
this is now noted in the man pages.
 o Fixed bug in convertToMSnset - github Issue 11:
    The function previously threw and error if the metadata was a tibble as it
needs to set row names. The function now tranforms the metadata object to a
data frame.

VERSION 1.1.0
------------------------
 o First Bioconductor Devel (Bioconductor 3.9)

VERSION 1.0.0
------------------------
 o First Bioconductor Release (Bioconductor 3.8)

VERSION 0.99.0
------------------------
 o initial version with the following functions implemented:

   + convertToMSnset
   + summarizeIntensities
   + normalizeQuantiles
   + normalizeScaling
   + groupScaling
   + rowScaling
   + regressIntensity
   + computeDiffStats
   + getContrastResults
   + assignColours
   + intensityPlot
   + intensityBoxplot
   + peptideIntensityPlot
   + pcaPlot
   + maVolPlot
   + corrPlot
   + rliPlot
   + hierarchicalPlot
   + plotMeanVar
   + coveragePlot

  

