NEWS

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countsimQC 0.99.0

• To comply with Bioconductor guidelines, the random seed (for subsampling of samples and features for dispersion and correlation calculations) is no longer set inside the functions, and the argument is removed from 'countsimQCReport()'. For reproducible results, please set the random seed explicitly in the R session.

countsimQC 0.5.2

• Add options to silence progress indicators
• Fixes in dispersion visualization

countsimQC 0.5.0

• Add a number of quantitative evaluation criteria and tests for pairwise comparison of data sets
• The argument 'subsampleSize' to the 'countsimQCReport()' function now determines the number of observations for which (time-consuming) statistics are calculated
• A new argument 'maxNForCorr' is added to the 'countsimQCReport()' function to indicate the number of observations for which pairwise correlations are calculated
• Improvements in documentation

countsimQC 0.4.6

• Allow code folding when showCode = TRUE

countsimQC 0.4.5

• Allow data frames or matrices as input (assuming design = ~ 1)
• First implementation of area between ECDFs
• Increase transparency of points in scatter plots

countsimQC 0.4.4

• Included effective library size evaluation.

countsimQC 0.4.2

• Allowed using just a subset of the samples for dispersion calculations.

countsimQC 0.4.1

• Added pairwise sample and variable correlation distributions.
• Added box plots and violin plots.

countsimQC 0.4.0

• Major overhaul of function and argument names for increased consistency.

countsimQC 0.3.2

• Added mean-variance plots.

countsimQC 0.3.0

• Added K-S statistics.
• Added line density plots.