ceRNA.surv {CeRNASeek} | R Documentation |
It is used to predict the survival of ternary relationship pairs and to support the survival prognosis of training sets and test sets.
ceRNA.surv(ceRNA, exp.sur, train = NULL, test = NULL, index)
ceRNA |
a dataframe that the ceRNA relationship is the data, and the prediction result data obtained according to the ceRNA prediction algorithm.Such as ceRNA.cmi prediction result file. |
exp.sur |
dataframe specifying expression and survival information.Its rownames are sample names.Its colnames are names in triplets and survival information (see example data in details). |
train |
a character string vector specifying train sample names. |
test |
a character string vector specifying test sample names. |
index |
a numeric vector (default 1) reprsenting rowindex of triplets analyed. |
A list of identified miRNA sponge interactions containing following components:
targetce
represented target names,respectively.
anotherce
names of modulators that another target(modulators) constitutes a ceRNA interaction relation.
coef_targetce
the coxph coefficient of targetce;
p_targetce
the coxph significance of targetce;
coef_anotherce
the coxph coefficient of anotherce;
p_anotherce
the coxph significance of anotherce;
N_low
The genes were ranked according to expression, and the number of samples
expressed in the bottom 25
N_high
The genes were ranked according to expression, and the number of samples
expressed in the top 25
HR
Risk score of ceRNA ternary pair.
p
Survival significance of ceRNA ternary pairs.
##---- Should be DIRECTLY executable !! ----
##-- ==> Define data, use random,
##-- or do help(data=index) for the standard data sets.
## The function is currently defined as
ceRNA.surv(ceRNA=dataset[["Pre.ceRNA"]],exp.sur=dataset[["exp.sur"]],train=NULL,test=NULL,index=5)