CHANGES IN VERSION 1.17.2

* We provide a new function LCD_extractCohort_callPerPID() which also belongs to 
    the LCD family and which performs the detection of signatures at cohort-wide 
    level, but re-runs the actual computation of the exposures per-PID with only 
    the signatures identified in the cohort-wide calling. The ovall wrapper 
    function LCD_complex_cutoff_combined() now also calls the new function and 
    stores the result in the returned list with item name 
    extractCohort_callPerPID 

================================

  CHANGES IN VERSION 1.17.1

* Introduction of an input parameter minimumNumberOfAlterations for the 
    functions LCD_complex_cutoff_perPID(), LCD_complex_cutoff_consensus() and
    LCD_complex_cutoff_combined(). If a sample has less mutations than this 
    cutoff, a warning is issued. By default, this values is set to 25 and may 
    be a good choice for analysis of SNV mutational signatures. For analysis of 
    Indel mutational signatures, a better choice is 20.

================================

  CHANGES IN VERSION 1.13.3

This is a stable version after several important changes.

* 95% Confidence intervals for exposures to mutational signatures can be 
    computed
* Analysis of the PCAWG mutational signatures is supported, both for PCAWG 
    SNV and PCAWG Indel signatures

The vignettes have been substantially changed:

* new vignettes have been written for the new features confidence intervals 
    and Indel signatures
* new vignettes were added for features already present in the package before,
    especially the optimal signature-specific cutoffs
* the topic of stratifiec analyses of mutational signatures was taken out of 
    the main vignette and now is described in a vignette on its own.

================================

  CHANGES IN VERSION 0.99.0

+ first version to be submitted to Bioconductor