Skip to content

1.2.0
Compare
Choose a tag to compare
@epurdom epurdom released this 07 Apr 18:21
· 1818 commits to master since this release
1.2.0
702b73e

Changes:

  • RSEC now has option rerunClusterMany, which if FALSE will not rerun the clusterMany step if RSEC is called on an existing clusterExperiment object (assuming of course, clusterMany has been run already on the object)
  • setBreaks now has option makeSymmetric to force symmetric breaks around zero when using the quantile option.
  • setBreaks now has a default for breaks (i.e. for minimal use, the user doesn't have to give the argument, just the data) in which case setBreaks will automatically find equal-spaced breaks of length 52 filling the range of data compatible with aheatmap. The order of the arguments data and breaks has been switched, however, to better accomodate this usage.
  • plotClusters can now handle NA values in the colData
  • plotClusters for clusterExperiment object now allows for setting sampleData=TRUE to indicate the plotting all of the sampleData in the colData slot.
  • nPCADims now allows values between 0,1 to allow for keeping proportion of variance explained.
  • addClusters now allows for argument clusterLabel to assign a clusterLabel when the added cluster is a vector (if matrix, then clusterLabel is just the column names of the matrix of cluster assignments)

Bug fixes:

  • fixed bug in clusterExperiment subsetting to deal with orderSamples correctly.
  • fixed bug in mergeClusters unable to plot when too big of edge lengths (same as plotDendrogram)
  • fixed bug in subsetting, where unable to subset samples by character
  • fixed bug in removeClusters so that correctly updates dendro_index and primary_index slots after cluster removed.
Assets 2
Loading