版本1.10.0的更改-------------------------------------------新功能o添加了新的颜色管理功能，包括is.Color和透明和改进现有的功能。o基于不同特征添加了颜色数据元素的新功能：染色体，位置，区域重叠... o改进的基因和转录本绘制功能。添加的功能可以自动从ORGDB对象获取基因符号。改进的转录本和基因定位。添加了一个函数，将基因的所有转录本合并到一个基因中。o kpplotbigwig现在可以根据染色体的全局最大值或仅考虑可见区域来调整YMAX值。o现在可以使用kpaddlabels o改进的文档和小插图o makegenesdatafromtxdb将标签添加到染色体的右侧是可观的，可以选择karyoplot。更改参数顺序。bug-fixes o现在可以在Plotkaryotype中使用CEX指定染色体名称大小o多个小型错误修复版本1.7.17中的更改-------------------------------------------------------------------------------------------------------新功能o添加了自动插件函数以自动分配R0和R1值o添加了KPADDCHROMOSEPARATORS以在染色体之间绘制线条o添加了新的绘图类型：“意识形态图”以绘制意识形态图和“ all”以绘制所有数据。面板和意识形态图o添加了kpplotbigwig以绘制Bigwig文件上的数据o添加了recareser :: togranges到Plotkaryotype Zoom，因此现在可以使用UCSC样式区域定义指定一个变焦区域（即Chr2：232122-321123”）o添加Colbybychr o添加Colbybychr o function to assign colors to data elements depending on their chromosome SIGNIFICANT USER-VISIBLE CHANGES o Added internal conversion to GenomicRanges using regioneR::toGRanges to kpPlotRegions. It is now possible to directly plot the regions in a BED file, for example. BUG FIXES o Fixed a bug in the coordinate change function where plotting was out of place o Fixed a bug in kpPlotCoverage where the coverage would not extend to the end of the chromosome o Several minor bug fixes Changes in version 1.7.9 ------------------------- SIGNIFICANT USER-VISIBLE CHANGES o New parameter in kpPlotMarkers to allow labels to move beyond the chromosome limits when repositioning to avoid label overlaps BUG FIXES o Fixed a bug in the coordinate change function where plotting was out of place or even invisible if the zoom object had addition seqlevels Changes in version 1.7.4 ------------------------- SIGNIFICANT USER-VISIBLE CHANGES o The zoom region in plotKaryotype can be specified in any format accepted by regioneR::toGRanges, including UCSC/IGV style "chr9:23000-40000". Changes in version 1.7.3 ------------------------- NEW FEATURES o Added `kpPlotBAMCoverage` to plot the exact coverage from a BAM file SIGNIFICANT USER-VISIBLE CHANGES o Improved performance of kpPlotBAMDensity. Specially in zoomed plots. BUG FIXES o kpAxis: Axis were not visible in zoomed plots. They are now visible. Changes in version 1.7.1 ------------------------- NEW FEATURES o Added `kpPlotBigWig` to plot data in bigwig files, usually data derived from BAM coverage for ChIP-seq, etc... SIGNIFICANT USER-VISIBLE CHANGES o Added a `digits` parameter to `kpAddBAseNumbers` to control the number of digits after the decimal point in genome position lables Changes in version 1.5.4 NEW FEATURES o Added `kpPlotGenes` and `kpPlotTranscripts` to plot gene and transcript models o Added `kpArea` to plot shaded areas. Ideal for coverage plots, RNA-seq, ChIP-seq, etc... SIGNIFICANT USER-VISIBLE CHANGES o Added plot.type=4 to `plotDefaultPlotParams` o Added new examples and extended the tutorial at the karyoploteR tutorial and examples site at https://bernatgel.github.io/karyoploter_tutorial/ BUG FIXES o Various minor bug fixes. o Various documentation fixes Changes in version 1.3.11 NEW FEATURES o Added zooming to create plots of regions smaller than a whole chromosome. o Added `kpPlotLoess` to plot a fitted loess and confidence interval for data points. o Added `kpPlotRainfall` to create rainfall plots from variants. o Added `kpPlotLinks` to plot connections between genome regions even in different chromosomes. SIGNIFICANT USER-VISIBLE CHANGES o New default in `plotKaryotype`: now `plot.type` defaults to 1, a ideogram with a single data panel above it ## Other o Added unit testing o Created a karyoploteR tutorial and examples site at https://bernatgel.github.io/karyoploter_tutorial/ BUG FIXES o Fixed a bug causing a misalignment between data points and plotting parameters in some edge cases. o Various minor bug fixes.