# StarBioTrek

## Documentation for package ‘StarBioTrek’ version 1.12.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

StarBioTrek-package | Download data
average | For TCGA data get human pathway data and creates a matrix with the average of genes for each pathway.
circleplot | Preparation for circle plot
ConvertedIDgenes | Get interacting genes inside pathways.
dsscorecrtlk | For TCGA data get human pathway data and creates a measure of discriminating score among pathways
eucdistcrtlk | For TCGA data get human pathway data and creates a measure of cross-talk among pathways
GetData | Get general information inside pathways.
getNETdata | Get network data from GeneMania.
GetPathData | Get genes inside pathways.
GetPathNet | Get interacting genes inside pathways.
GE_matrix | Get human KEGG pathway data and a gene expression matrix in order to obtain a list with the gene expression for only pathways given in input .
GE_matrix_mean | Get human KEGG pathway data and a gene expression matrix in order to obtain a matrix with the mean gene expression for only pathways given in input .
GOChord | Displays the relationship between genes and terms.
IPPI | Multilayer analysis Cava et al. BMC Genomics 2017
listpathnet | Get human KEGG pathway data and the output of list_path_net define the common genes.
pathnet | Get human KEGG pathway data and creates a network data.
plotcrosstalk | Preparation for plotting cross-talk
SelectedSample | Select the class of TCGA data
select_class | Select the class of TCGA data
StarBioTrek | Download data
stdv | For TCGA data get human pathway data and creates a measure of standard deviations among pathways
svm_classification | SVM classification for each feature