feature_profile: Visualize the feature profile

In jinghan1018/tensorICA: tensorICA

Description

Visualize the feature profile against phenotype .

Usage

feature_profile(
  Data,
  phenotype.v,
  phenotype.is.categorical,
  feature.index,
  tissue.index
)

Arguments

Data	The data object used in TICA.
phenotype.v	A vector comtains phenotypes inputed by users to plot against, it should be in the same length with the number of sample.
phenotype.is.categorical	A Boolean logical variable states whether the phenotype is categorical.
feature.index	The index of features in data matrix used in TICA. It can be obtained by feature selection.
tissue.index	The index of tissue in data matrix used in TICA.

Value

profile.p All the profile figures.

References

Teschendorff AE, Han J, Paul D, Virta J, Nordhausen K. Tensorial Blind Source Separation for Improved Analysis of Multi-Omic Data. Genome Biology (2018) 19:76.

Examples

data(buccalbloodtensor);
Dim.l <- EstDim(buccalbloodtensor$data);
dim <- Dim.l$dim;
tica.o <- DoTICA(Data = buccalbloodtensor$data, dim = dim, method = "FOBI");
feature.k <- feature_selection(tica.o = tica.o, component = 12, CLkurt = 0.95);
 (profile.p <- feature_profile(Data = buccalbloodtensor$data, 
phenotype.v = buccalbloodtensor$pheno.l$SmokingStatus, phenotype.is.categorical = TRUE,
feature.index = feature.k$pred.idx[[1]][seq_len(10)], tissue.index = 1))

jinghan1018/tensorICA documentation built on March 23, 2020, 5:26 a.m.