R ggplot排序栏中的“barplot-like”情节 [英] R ggplot ordering bars in "barplot-like " plot

问题描述

使用CSV格式的此数据集并感谢来自stackoverflow的输入/帮助，我设法绘制了带有使用ggplot的组的彩色横条和条形的条形图！这是我第一次使用ggplot。

  GO生物过程，调节脂质代谢过程，1.87E-35 
 GO生物过程，急性炎症反应， 3.21E-37 
 GO生物过程，对胰岛素刺激的反应，1.05E-38 
 GO生物过程，类固醇代谢过程，4.19E-39 
 GO生物过程，胆固醇代谢过程，1.19 E-40 
 GO生物过程，细胞对化学刺激的反应，5.87E-42 
 GO生物过程，酒精代谢过程，5.27E-43 
 GO生物过程，固醇代谢过程，2.61 E-43 
 GO生物过程，脂质体内平衡，1.12E-44 
 GO生物过程，对肽激素刺激的反应，1.29E-45 
 GO生物过程，单羧酸代谢过程，2.33 E-54 
 GO生物过程，细胞酮代谢过程，5.46E-74 
 GO生物过程，羧酸代谢过程，2.41E-76 
 GO生物过程，有机酸代谢过程， 5.30E-79 
 Pathway Commons，FOXA转录因子网络，7.40E-61 
 Pathway Commons，FOXA2和FOXA3转录因子网络，1.39E-64 
转录因子靶标，通过肝细胞中的ChIP芯片鉴定的HNF6的靶标，1.77E- 32 
转录因子靶标，通过肝细胞中的ChIP芯片鉴定的HNF1α的靶标，3.87E-65 
转录因子靶标，通过肝细胞中的ChIP芯片鉴定的HNF4α的靶标，1.38 E-131 
  

这是我的代码：

< pre $ ggplot（tmp，aes（x = tmp $ V2，y = -log10（tmp $ V3），fill = tmp $ V1））+
geom_bar（stat =身份）+
coord_flip（）


现在我想创建与上面相同的图，但是值在每个组中进行排序。看起来像这样的东西。

我是ggplot的新手，所以任何帮助将不胜感激。
Thanks。

Ben

解决方案

通过将其转换为因子来变量。

 >头（d）
 V1 V2 V3 
 1 GO生物过程调节脂质代谢过程1.87e-35 
 2 GO生物过程急性炎症反应3.21e-37 
 3 GO生物过程对胰岛素刺激的反应1.05e-38 
 4 GO生物过程类固醇代谢过程4.19e-39 
 5 GO生物过程胆固醇代谢过程1.19e-40 
 GO生物过程细胞反应化学刺激5.87e-42 
 
> d $ V4 < - 因子（d $ V2，等级= d $ V2）＃将V2转换为因子
>头（d）
 V1 V2 V3 V4 
 1 GO生物过程调节脂质代谢过程1.87e-35调节脂质代谢过程
 2 GO生物过程急性炎症反应3.21e-37急性炎症反应
 3 GO生物过程对胰岛素刺激的反应1.05e-38对胰岛素刺激的反应
 4 GO生物过程类固醇代谢过程4.19e-39类固醇代谢过程
 GO生物过程胆固醇代谢过程1.19e-40胆固醇代谢过程
 GO生物过程细胞对化学刺激的反应5.87e-42细胞对化学刺激的反应
 
> ＃plot 
> ggplot（d，aes（V4，-log10（V3），fill = V1））+ geom_bar（）+ coord_flip（）
  

这里有更多信息： http://kohske.wordpress.com/2010/12/29/faq-how-to-order-the-factor-variables-in-ggplot2/

with this dataset in CSV format and thanks to input/help from stackoverflow I managed to plot a barplot with horizontal bars and bars colored by "groups" using ggplot ! This is the first time I use ggplot.

GO Biological Process,regulation of lipid metabolic process,1.87E-35
GO Biological Process,acute inflammatory response,3.21E-37
GO Biological Process,response to insulin stimulus,1.05E-38
GO Biological Process,steroid metabolic process,4.19E-39
GO Biological Process,cholesterol metabolic process,1.19E-40
GO Biological Process,cellular response to chemical stimulus,5.87E-42
GO Biological Process,alcohol metabolic process,5.27E-43
GO Biological Process,sterol metabolic process,2.61E-43
GO Biological Process,lipid homeostasis,1.12E-44
GO Biological Process,response to peptide hormone stimulus,1.29E-45
GO Biological Process,monocarboxylic acid metabolic process,2.33E-54
GO Biological Process,cellular ketone metabolic process,5.46E-74
GO Biological Process,carboxylic acid metabolic process,2.41E-76
GO Biological Process,organic acid metabolic process,5.30E-79
Pathway Commons,FOXA transcription factor networks,7.40E-61
Pathway Commons,FOXA2 and FOXA3 transcription factor networks,1.39E-64
Transcription Factor Targets,"Targets of HNF6, identified by ChIP-chip in hepatocytes",1.77E-32
Transcription Factor Targets,"Targets of HNF1alpha, identified by ChIP-chip in hepatocytes",3.87E-65
Transcription Factor Targets,"Targets of HNF4alpha, identified by ChIP-chip in hepatocytes",1.38E-131

This is my code:

ggplot(tmp, aes(x=tmp$V2, y=-log10(tmp$V3), fill=tmp$V1)) +
geom_bar(stat="identity") +
coord_flip()

Now I would like to create the same plot as above but where the values within each "groups" are sorted. Something that will look like this.

I am new to ggplot, so any help will be appreciated. Thanks.

Ben

解决方案

You can order the variable by converting it into factor.

> head(d)
                     V1                                     V2       V3
1 GO Biological Process  regulation of lipid metabolic process 1.87e-35
2 GO Biological Process            acute inflammatory response 3.21e-37
3 GO Biological Process           response to insulin stimulus 1.05e-38
4 GO Biological Process              steroid metabolic process 4.19e-39
5 GO Biological Process          cholesterol metabolic process 1.19e-40
6 GO Biological Process cellular response to chemical stimulus 5.87e-42

> d$V4 <- factor(d$V2, levels=d$V2) # convert V2 into factor
> head(d)
                     V1                                     V2       V3                                     V4
1 GO Biological Process  regulation of lipid metabolic process 1.87e-35  regulation of lipid metabolic process
2 GO Biological Process            acute inflammatory response 3.21e-37            acute inflammatory response
3 GO Biological Process           response to insulin stimulus 1.05e-38           response to insulin stimulus
4 GO Biological Process              steroid metabolic process 4.19e-39              steroid metabolic process
5 GO Biological Process          cholesterol metabolic process 1.19e-40          cholesterol metabolic process
6 GO Biological Process cellular response to chemical stimulus 5.87e-42 cellular response to chemical stimulus

> # plot
> ggplot(d, aes(V4, -log10(V3), fill=V1)) + geom_bar() + coord_flip()

here is further information: http://kohske.wordpress.com/2010/12/29/faq-how-to-order-the-factor-variables-in-ggplot2/

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