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-devel (arm64): bbmix_1.0.0.tgz, r-release (arm64): bbmix_1.0.0.tgz, r-oldrel (arm64): bbmix_1.0.0.tgz, r-devel (x86_64): bbmix_1.0.0.tgz, r-release (x86_64): bbmix_1.0.0.tgz, r-oldrel (x86_64): bbmix_1.0.0.tgz

Linking:

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