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ontologySimilarity (version 1.0)

Functions for Calculating Ontological Similarities

Description

Functions for calculating semantic similarities between ontological terms or sets of ontological terms based on term information content and assessing statistical significance of similarity in the context of a collection of sets of ontological terms.

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Version

Install

install.packages('ontologySimilarity')

Monthly Downloads

289

Version

1.0

License

GPL (>= 2)

Maintainer

Daniel Greene

Last Published

January 13th, 2016

Functions in ontologySimilarity (1.0)

get_sim_sample

Get random sample of group similarities for groups of given size
get_stratified_sim_p_sorted

Get stratified similarity p-value (sorted)
get_sim_p

Get similarity p-value
get_term_set_to_term_sims

Get `term sets to term' similarity matrix
get_sim_mat

Get similarity matrix from a term similarity matrix
get_similarity_rank_matrix

Get matrix of similarity rank from similarity matrix
get_term_sim_mat

Get term-term similarity matrix
get_sim_to_profile_p

Get p-value for best-match-average similarity between two term sets
get_sim_grid

Get similarity matrix from a term-to-term similarity matrix between two sets of term sets
ontologySimilarity-package

Functions for Calculating Ontological Similarities
get_stratified_sim_p

Get stratified similarity p-value
resnik

Calculate Resnik similarity score of two term sets
lin

Calculate Lin similarity score of two term sets
get_sim

Calculate the group similarity of a set of row/column indices