BI_heatmap.dds: heatmap.dds

In shijianasdf/BasicBioinformaticsAnalysisFromZhongShan: Launch Usual Clinical tool for Kind Yield

Description

根据选择的基因和dds文件，按一定的参数绘制热图。

Usage

  heatmap.dds(dds,
              transformation = "normTransform",
              expr.matrix = NULL,log.convert = T,
              select,
              design,
              contrast,#对比所在列名
              contrast.list=c(list(c("N0","Np")),list(c("green","red"))),
              rowscale=T,
              expr.name = "expression",
              cluster_rows = T,cluster_cols=T,
              row.k = 4,
              show_column_names = F,
              show_row_names = T,
              clustering_distance_row = "euclidean",
              clustering_distance_column = "euclidean",
              column_names_gp = gpar(fontsize = 16, fontface = "bold"),
              row_names_gp = gpar(fontsize = 16, fontface = "bold"))

Arguments

dds	来自DESeq2的结果
select	待画热图的基因
design	含有分组信息的数据框。画热图的数据框将按design的分组信息来排序
contrast	分组的分类。如"N.status"
contrast.list	颜色与对比的对应关系
rowscale	T代表按行对矩阵进行scale的归一化运算
transformation	仅支持"normTransform"和"vst"两种，其它会报道。
cluster_rows/cluster_cols	是否对行/列进行聚类。

Value

heatmap plot

Author(s)

Weibin Huang

shijianasdf/BasicBioinformaticsAnalysisFromZhongShan documentation built on Jan. 3, 2020, 10:08 p.m.