Signac 0.2.0

  • Removed dependency on TFBSTools, motifmatchr, AnnotationDbi, ggbio, AnnotationFilter
  • Renamed PeriodPlot to FragmentHistogram
  • Removed motif dimension reduction functions
  • Removed motif clustering functions
  • Removed neighbors and reductions slots from motif class
  • Added motif.names slot to motif class
  • Added ability to plot peak ranges in CoveragePlot
  • Added ability to plot gene annotations from GRanges object
  • Changed gene plot style in CoveragePlot
  • Allow passing additional arguments to FilterFragments
  • Add inst/extdata
  • Change DESCRIPTION file so that Bioconductor dependencies are automatically installed

Signac 0.1.6

  • Bug fix for GetCellsInRegion
  • Improve documentation

Signac 0.1.5

  • New TSSEnrichment and TSSPlot functions for TSS enrichment scoring
  • New InsertionBias function
  • New options in CoveragePlot for scaling tracks
  • Major speed improvements for CoveragePlot
  • Improved documentation (added examples)

Signac 0.1.4

  • Updates to CoveragePlot: now plots a Tn5 integration score per base, rather than the whole fragment.

Signac 0.1.3

  • New GetIntersectingFeatures function to find overlapping peaks between objects
  • New MergeWithRegions function to perform region-aware Seurat object merging

Signac 0.1.2

  • New RunChromVAR function to run chromVAR through Signac
  • New RegionStats function to add statistics about peak sequences to the feature metadata
  • Improvements to FindMotifs: now selects a set of background peaks matching the sequence characteristics of the input

Signac 0.1.1

  • Added IntersectMatrix
  • Added unit tests
  • Bug fixes for ChunkGRanges

Signac 0.1.0

  • This is the first release of Signac!