# Functional Similarities

## Documentation for package ‘BioCor’ version 1.35.0

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

## Help Pages

BioCor-package | BioCor: A package to calculate functional similarities
addSimilarities | Additive integration of similarities
AintoB | Insert a matrix into another
BioCor | BioCor: A package to calculate functional similarities
clusterGeneSim | Similarity score between clusters of genes based on genes similarity
clusterGeneSim-method | Similarity score between clusters of genes based on genes similarity
clusterSim | Similarity score between clusters of genes based on pathways similarity
clusterSim-method | Similarity score between clusters of genes based on pathways similarity
combinadic | i-th combination of n elements taken from r
combineScores | Combining values
combineScoresPar | Combining values
combineSources | Combine different sources of pathways
conversions | Convert the similarities formats
D2J | Convert the similarities formats
diceSim | Compare pathways
duplicateIndices | Finds the indices of the duplicated events of a vector
geneSim | Similarity score genes based on pathways similarity
geneSim-method | Similarity score genes based on pathways similarity
inverseList | Invert a list
J2D | Convert the similarities formats
mclusterGeneSim | Similarity score between clusters of genes based on genes similarity
mclusterGeneSim-method | Similarity score between clusters of genes based on genes similarity
mclusterSim | Similarity score between clusters of genes based on pathways similarity
mclusterSim-method | Similarity score between clusters of genes based on pathways similarity
mgeneSim | Similarity score genes based on pathways similarity
mgeneSim-method | Similarity score genes based on pathways similarity
mpathSim | Calculates the Dice similarity between pathways
mpathSim-method | Calculates the Dice similarity between pathways
pathSim | Calculates the Dice similarity between pathways
pathSim-method | Calculates the Dice similarity between pathways
plot_data | The position of the nodes is based on the similarity between them.
plot_similarity | The position of the nodes is based on the similarity between them.
removeDup | Remove duplicated rows and columns
seq2mat | Transforms a vector to a symmetric matrix
similarities | Apply a function to a list of similarities
weighted | Weighted operations
weighted.prod | Weighted operations
weighted.sum | Weighted operations