Package: RAREsim 1.9.0

Ryan Barnard

RAREsim: Simulation of Rare Variant Genetic Data

Haplotype simulations of rare variant genetic data that emulates real data can be performed with RAREsim. RAREsim uses the expected number of variants in MAC bins - either as provided by default parameters or estimated from target data - and an abundance of rare variants as simulated HAPGEN2 to probabilistically prune variants. RAREsim produces haplotypes that emulate real sequencing data with respect to the total number of variants, allele frequency spectrum, haplotype structure, and variant annotation.

Authors:Megan Null [aut], Ryan Barnard [cre]

RAREsim_1.9.0.tar.gz
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RAREsim_1.9.0.tgz(r-4.4-any)RAREsim_1.9.0.tgz(r-4.3-any)
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RAREsim.pdf |RAREsim.html✨
RAREsim/json (API)
NEWS

# Install 'RAREsim' in R:
install.packages('RAREsim', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/meganmichelle/raresim/issues

Datasets:
  • afs_afr - African/African American target data from gnomAD v2.1
  • nvariant_afr - African target data for the Number of Variants function from gnomADv2.1

On BioConductor:RAREsim-1.9.0(bioc 3.20)RAREsim-1.8.0(bioc 3.19)

bioconductor-package

5 exports 0.61 score 1 dependencies

Last updated 2 months agofrom:1b744ad58c

Exports:afsexpected_variantsfit_afsfit_nvariantnvariant

Dependencies:nloptr

RAREsim Vignette

Rendered fromRAREsim_Vignette.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2022-04-22
Started: 2020-12-28