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denovolyzeR (version 0.2.0)

Statistical Analyses of De Novo Genetic Variants

Description

An integrated toolset for the analysis of de novo (sporadic) genetic sequence variants. denovolyzeR implements a mutational model that estimates the probability of a de novo genetic variant arising in each human gene, from which one can infer the expected number of de novo variants in a given population size. Observed variant frequencies can then be compared against expectation in a Poisson framework. denovolyzeR provides a suite of functions to implement these analyses for the interpretation of de novo variation in human disease.

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Version

Install

install.packages('denovolyzeR')

Monthly Downloads

188

Version

0.2.0

License

GPL-3

Maintainer

James Ware

Last Published

August 1st, 2016

Functions in denovolyzeR (0.2.0)

denovolyzeR

A package for the analysis of de novo sequencing variants
autismDeNovos

de novo variants found in 1,078 autism trios
parseInput

Checks input for errors
PermuteMultiHits

Permutes x variants across a genelist, and counts genes with multiple hits
viewProbabilityTable

Displays underlying de novo probability tables
denovolyzeMultiHits

Determine significance of genes with multiple de novos
denovolyze

Evaluates burden of de novo variation against expectation
fmrpGenes

FMRP genes