一旦绘图参数更改,调用新参数并将其传递给RCircos.Reset.Plot.Parameters()函数,同时将检查其他两个组件是否更新。 rcircos.params<- RCircos.Get.Plot.Parameters()rcircos.params$base.per.unit <-3000RCircos.Reset.Plot.Parameters(rcircos.params)RCircos.List.Plot.Parameters() 5用...
Get All RCircos Plot ParametersHongen Zhang
rcircos.params<-RCircos.Get.Plot.Parameters(); rcircos.cyto<-RCircos.Get.Plot.Ideogram(); rcircos.position<-RCircos.Get.Plot.Positions(); RCircos.List.Plot.Parameters() ## Parameters for current RCircos session. ## ## Parameters in inch: ## === ## radius.len: 1.84 ## chr.ideo.p...
# [28] "RCircos.Get.Gene.Name.Plot.Parameters" # [29] "RCircos.Get.Heatmap.Color.Scale" # [30] "RCircos.Get.Heatmap.Color.Scale.Location" # [31] "RCircos.Get.Heatmap.Data.Colors" # [32] "RCircos.Get.Link.Colors" ...
[27] "RCircos.Get.Gene.Label.Locations" [28] "RCircos.Get.Gene.Name.Plot.Parameters" [29] "RCircos.Get.Heatmap.Color.Scale" [30] "RCircos.Get.Heatmap.Color.Scale.Location" [31] "RCircos.Get.Heatmap.Data.Colors" [32] "RCircos.Get.Link.Colors" [33] "RCircos.Get.Padding...
###Step1: to get chromosome info(chr names + length) ###第一步:获得染色体长度和名称信息作为circos plot圆盘极坐标 Toxo.fasta_all <- readDNAStringSet("/Users/sidaye/Documents/R/AP2_all_analysis/Input/Toxo_ME49v62/ToxoDB-62_TgondiiME49_Genome.fasta") #names...
The RCircos package provides a set of graphic functions which implement basic Circos2D track plot[1]for visualizing similarities and differences of genome structure and positional relationships between genomic intervals.The package is implemented with R graphics package that comes with R base ...
RCircos.Reset.Plot.Parameters to see how to modify the core components. #chr.exclude <- NULL; 设置不显示的染色体,如 c(1,3) #cyto.info <- UCSC.HG19.Human.CytoBandIdeogram; 设置染色体数据 #tracks.inside <- 10; 设置内部track 个数
>rcircos.params<-RCircos.Get.Plot.Parameters()>rcircos.params#一共有32个参数,这里列出了所有参数以及默认值 $base.per.unit[1]30000...$max.layers[1]5$sub.tracks[1]5$text.color[1]"black"$hist.color[1]"red"$line.color[1]"black"$scatter.color[1]"black"$tile.color[1]"black"$track....
circos.info: prints general parameters of current circular plot. circos.clear: 关闭现在的circos图形,从而不会影响下一个图形的绘制. 下面用一个简单的例子,来一步步说明如何使用circlize绘制circos图形. 构建数据并启动一个circos layout. 我们一共构建8个种类的数据,在circos的表现就是8个sector. ...