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bbmix: Bayesian Model for Genotyping using RNA-Seq

The method models RNA-seq reads using a mixture of 3 beta-binomial distributions to generate posterior probabilities for genotyping bi-allelic single nucleotide polymorphisms. Elena Vigorito, Anne Barton, Costantino Pitzalis, Myles J. Lewis and Chris Wallace (2023) <doi:10.1093/bioinformatics/btad393> "BBmix: a Bayesian beta-binomial mixture model for accurate genotyping from RNA-sequencing."

Version: 1.0.0
Depends: R (≥ 3.4.0)
Imports: methods, Rcpp (≥ 0.12.0), rstan (≥ 2.18.1), R.utils, data.table, rmutil
LinkingTo: BH (≥ 1.66.0), Rcpp (≥ 0.12.0), RcppEigen (≥ 0.3.3.3.0), rstan (≥ 2.18.1), StanHeaders (≥ 2.18.0)
Suggests: knitr, rmarkdown
Published: 2023-07-06
DOI: 10.32614/CRAN.package.bbmix
Author: Elena Vigorito [aut, cre], Chris Wallace [aut]
Maintainer: Elena Vigorito <elena.vigorito at mrc-bsu.cam.ac.uk>
License: GPL-2
NeedsCompilation: yes
SystemRequirements: GNU make
Materials: README
CRAN checks: bbmix results

Documentation:

Reference manual: bbmix.pdf
Vignettes: BBmix installation and usage

Downloads:

Package source: bbmix_1.0.0.tar.gz
Windows binaries: r-devel: bbmix_1.0.0.zip, r-release: bbmix_1.0.0.zip, r-oldrel: bbmix_1.0.0.zip
macOS binaries: r-release (arm64): bbmix_1.0.0.tgz, r-oldrel (arm64): bbmix_1.0.0.tgz, r-release (x86_64): bbmix_1.0.0.tgz, r-oldrel (x86_64): bbmix_1.0.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=bbmix to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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