WGCNA-errorLength of 'xLabels' m

作者: 天涯清水 | 来源:发表于2020-02-12 22:50 被阅读0次

WGCNA-errorLength of 'xLabels' m
关于matplotlib.pyplot.xsticks，x轴标签
嗯m m m
知识点八上
作文题八上
泪的告白
知识点七上
M.M
M.M
M.M

Error in labeledHeatmap(Matrix = moduleTraitCor, xLabels = colnames(design), : Length of 'xLabels' must equal the number of columns in 'Matrix.'

用以前的代码，跑其他的样本第5步的时候出现了

STEP5:模块和性状的关系
MEs是一个关于modules的特征量矩阵，行数等于筛选的modules数，列数等于样本数；

if(T){
  nGenes = ncol(datExpr)
  nSamples = nrow(datExpr)
  design=model.matrix(~0+ datTraits$ClinicalTraits)
  colnames(design)=levels(datTraits$ClinicalTraits)
  moduleColors <- labels2colors(net$colors)
  # Recalculate MEs with color labels
  MEs0 = moduleEigengenes(datExpr, moduleColors)$eigengenes
  MEs = orderMEs(MEs0); ##不同颜色的模块的ME值矩 (样本vs模块)
  moduleTraitCor = cor(MEs, design , use = "p");
  moduleTraitPvalue = corPvalueStudent(moduleTraitCor, nSamples)
  
  sizeGrWindow(10,6)
  # Will display correlations and their p-values
  textMatrix = paste(signif(moduleTraitCor, 2), "\n(",
                     signif(moduleTraitPvalue, 1), ")", sep = "");
  dim(textMatrix) = dim(moduleTraitCor)
  png("step5-Module-trait-relationships.png",width = 800,height = 1200,res = 120)
  #pdf("step5-Module-trait-relationships.pdf",width = 36, height = 36)
  par(mar = c(6, 8.5, 3, 3));
  
  # Display the correlation values within a heatmap plot
  
  labeledHeatmap(Matrix = moduleTraitCor,
                 xLabels = colnames(design),
                 yLabels = names(MEs),
                 ySymbols = names(MEs),
                 colorLabels = FALSE,
                 colors = greenWhiteRed(50),
                 textMatrix = textMatrix,
                 setStdMargins = FALSE,
                 cex.text = 0.5,
                 zlim = c(-1,1),
                 main = paste("Module-trait relationships"))
  dev.off()
}

报错信息：

Error in labeledHeatmap(Matrix = moduleTraitCor, 
xLabels = colnames(design),  :    
Length of 'xLabels' must equal the number of columns in 'Matrix.'

出图的时候错了。搜索也找不到答案，不知道如何解决。

colnames(design)的结果为null，把colnames(design)转化为因子也不能解决。

今天（2020.02.13）把上面的问题解决了，的确是把colnames(design)转化为因子。准确的说应该是吧。design转化为因子。

colnames(design)=levels(as.factor(datTraits$ClinicalTraits))

但是会有警告信息,不过不影响结果：

Warning message:
In greenWhiteRed(50) :
  WGCNA::greenWhiteRed: this palette is not suitable for people
with green-red color blindness (the most common kind of color blindness).
Consider using the function blueWhiteRed instead.