marker_gene_selection {UNDO} | R Documentation |
Select the marker genes in tumor and stroma in an unsupervised way
marker_gene_selection(X, lowper, highper, epsilon1, epsilon2)
X |
gene expression data |
lowper |
The percentage of genes the user wants to remove with lowest norm. The range should be between 0 and 1. |
highper |
The percentage of genes the user wants to remove with highest norm.The range should be between 0 and 1. |
epsilon1 |
Influence the number of marker genes. With increasing of epsilon1, the number marker genes in source 1 will increase. The value should be positive. |
epsilon2 |
Influence the number of marker genes. With increasing of epsilon1, the number marker genes in source 2 will increase. The value should be positive. |
a1 |
The slope of marker genes in source 1 |
a2 |
The slope of marker genes in source 2 |
MG1 |
The gene list of marker genes in source 1 |
MG2 |
The gene list of marker genes in source 2 |
dimenMatrix |
dimension reduction matrix |
Niya Wang (wangny@vt.edu)
X <- matrix(runif(20000),10000,2) MG_set <- marker_gene_selection(X, 0.4, 0.1, 0.1, 0.1)