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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-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 |
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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.