CHANGES IN 1.27.1 ----------------------- * Suggest 'markdown' package in DESCRIPTION and utilize hg19 as default freeze where applicable. CHANGES IN 1.19.0 ----------------------- * Drop forced strand conversion to '+' and makeGRanges with add strand as '*' if none was found. CHANGES IN 1.11.1 ----------------------- * GenomicRanges package update adjustments & improved tests CHANGES IN 1.9.0 ----------------------- * code spacing edits & GenomicRanges package update adjustments CHANGES IN 1.7.1 ----------------------- * code spacing edits & namespace conflict fixes CHANGES IN 1.5.1 ----------------------- * ggplot2 update bug fixes. CHANGES IN 1.3.2 ----------------------- * fixed duplicated featureName column in getSitesInFeature when allSubjectCols is TRUE. CHANGES IN 1.3.1 ----------------------- * replaced plyr with dplyr CHANGES IN 1.1.1 ----------------------- * added allSubjectCols & overlapType params to getSitesInFeature CHANGES IN 0.99.9 ----------------------- * metadatacol bug fix CHANGES IN 0.99.8 ----------------------- * plotdisFeature() obtains a geom parameter. CHANGES IN 0.99.7 ----------------------- * Documentation fixes CHANGES IN 0.99.6 ----------------------- * Using GRanges::sort in makeGRanges(). CHANGES IN 0.99.5 ----------------------- * Documentation changes. CHANGES IN 0.99.4 ----------------------- NEW FEATURES * plotdisFeature(), function to plot distance distribution to feature boundary. * Includes sites.ctrl dataset to compliment sites dataset. CHANGES IN 0.99.3 ----------------------- NEW FEATURES * makeGRanges() inherits total functionality of makeRangedData() and an option to turn off factor to character conversion. DEPRECATED AND DEFUNCT * Functions resizeRangedData() & makeRangedData() has been removed in favor of using only GenomicRanges-derived objects. BUG FIXES * Improved seqinfo slot population method in makeGRanges()