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