R News rCGH package 1.0.1 ----------------------- BUG FIXES * Major bug fixed in the view() function: one function was not properly called. rCGH package 0.99.10 ----------------------- BUG FIXES * In byGeneTable(): errors may occured when genes were searched on too short segments. rCGH package 0.99.9 ----------------------- BUG FIXES * In view() function: segment colors were not properly assigned. rCGH package 0.99.8 ----------------------- BUG FIXES * Error when merging probes with duplicated locations on Agilent CytoGenomics 3.0: fixed. rCGH package 0.99.7 ----------------------- SIGNIFICANT USER-VISIBLE CHANGES * byGeneTable() is not a S4 method anymore but S3: as argument, it takes a segmentation table exported from a rCGH object, and not the object itself. As a consequence, byGeneTable() can be used on any segmentation table of the same form as those exported from a rCGH object. * The full by-gene table is not stored in rCGH object, but built then exported on the fly, using byGeneTable(). * Supplementary argument in getSegTable(): minLen allows the user to specify the minimal segment length, in Kb. Segments shorter than this value are merged before the segmentation table is exported. The original table is still stored in the rCGH object. * New features in plotProfile() and multiplot(): one or multiple genes can be tagged. As for getSegTable(), the minimal segment length (in Kb) can be specified. * Server version for the interactive viewer is described in the vignette. BUG FIXES * byGeneTable: . In the exported by-gene table, the corresponding segment lengths were not properly reported. . Errors occured when a gene was covered by 2 segments. rCGH package 0.99.6 ----------------------- SIGNIFICANT USER-VISIBLE CHANGES * New cytoScan example file * Updated vignette * The rCGH version used is stored in rCGH objects for traceability NON-VISIBLE CHANGES * Supplementary unittests rCGH package 0.99.5 ----------------------- SIGNIFICANT USER-VISIBLE CHANGES * R-3.2.1 is the minimal required version rCGH package 0.99.4: First release! ----------------------- SIGNIFICANT USER-VISIBLE CHANGES * No changes NEW FEATURES * New package BUG FIXES * No changes classified as 'bug fixes' (package under active development)