Description Usage Arguments Value
预览各个cluster中marker的表达,以heatmap和直方图的形式展示(密度图);
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 | cluster_marker_preview(
rawdata,
groups,
all_markers,
cluster_color = dif_seq_rainbow,
expression_color = rev(brewer.pal(n = 7, name = "RdYlBu")),
cluster_name = "metacluster",
output_dir = "cluster_marker_preview",
major_cond = "Tissue_Type",
summerise_method = "median",
Rowv = T,
Colv = T,
cluster_id = NULL,
xlim = NULL,
free_x = F,
colored_by = "cluster",
trans_method = "simpleAsinh"
)
|
groups |
实验组的Metadata信息,其中必需包含列名:”Short_name“ |
cluster_color |
tSNE图的亚群的配色方案,默认dif_seq_rainbow |
cluster_name |
用过分析的cluster名称 |
output_dir |
输出数据文件夹名称 |
major_cond |
选择groups中一个列名做为展现差异的major_cond |
cluster_id |
指定显示的cluster |
xlim |
指定x轴范围,例如:c(0,5),只在free_x=F的时候有效 |
free_x |
True或者FALSE,设置是否每张图X-轴取值范围是否自动,建议设置为F |
trans_method |
数据转化方式,有四种:"CytofAsinh","simpleAsinh";"0_to_Max",所有Marker的信号强度除以最大值,线性转换,通过除以各通道信号的最大值把数值scale到0~1;"Min_to_Max",线性转换,最小值转换成0,最大值转换成1,最大限度展现population的表达差异 |
xdata |
数据框或者矩阵,附带有(meta)cluster表达矩阵 |
none
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.