View source: R/TissueSpecificity.R
ts.IUT | R Documentation |
combine the TSI/TSE test and IUT to determine the tissue specific genes and the tissue excluded genes. list of list with 4 methods raw and filtered results matrix of tissue specific genes for each method; upload all libraries gplots TCC upload function below TissueTransform, DiscNULLrow, factOrg, IUTest, numeratorTSI, denominator, TSI, tsi.matrix, plotlOnegene, plotLfewGenes, heatmap.ts, tindex, tindex.matrix,
ts.IUT(name = "exp", eset, tissues, target, threshold = 0.05, filter = 50)
name |
name of the data |
eset |
matrix of expression data in matrix format in TPM for example but any other expression matrix |
tissues |
character vector defining the the tissue type of each column present in the expression table |
target |
the target tissues |
threshold |
represent the p-value for the IUT test after Sidak correction; the outlier percentage for the ROKU test the percentage of (1 -threshold for the Tindex and the TSI tests) |
filter |
the minimal expression level for the tissue/condition of interest; the default is set at 100; expression of 100 TPM |
list.all csv.table output for each type of analysis will be written in the table folder
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