最近研究血液病亚克隆,觉得这个fishplot图挺有意思,抽象派图,各大paper上都很热衷于这种高大上的表达方式,故也利用R包“fishplot”画一下,果真高端大气上档次,故给出代码,用于绘图。
输入文件如下(faction.xls):第一行表示时间节点timepoints,其他行表示VAF的median值。
运行方式如下:
Rscript fishplot.r infile outfile parents
例子如下:
Rscript fishplot.r faction.xls faction.pdf 0,1,1,1,3,4,0
源代码如下:
主要参数如下:
:输入文件(faction.xls),A numeric matrix containing tumor fraction estimates for all clones at all timepoints
:输出文件(faction.pdf)
:An integer vector specifying parental relationships between clones
其他参数可以自行调整!
附文献:
[1] Miller et al. BMC Genomics (2016) 17:880
DOI 10.1186/s12864-016-3195-z
[2] Clonal dynamics in a single AML case tracked for 9 years reveals the complexity of leukemia progression, Leukemia accepted article preview 1 October 2015; doi: 10.1038/leu.2015.264.
关注公众号,每日有更新!