Package: mbmixture 0.4
mbmixture: Microbiome Mixture Analysis
Evaluate whether a microbiome sample is a mixture of two samples, by fitting a model for the number of read counts as a function of single nucleotide polymorphism (SNP) allele and the genotypes of two potential source samples. Lobo et al. (2021) <doi:10.1093/g3journal/jkab308>.
Authors:
mbmixture_0.4.tar.gz
mbmixture_0.4.zip(r-4.5)mbmixture_0.4.zip(r-4.4)mbmixture_0.4.zip(r-4.3)
mbmixture_0.4.tgz(r-4.4-any)mbmixture_0.4.tgz(r-4.3-any)
mbmixture_0.4.tar.gz(r-4.5-noble)mbmixture_0.4.tar.gz(r-4.4-noble)
mbmixture_0.4.tgz(r-4.4-emscripten)mbmixture_0.4.tgz(r-4.3-emscripten)
mbmixture.pdf |mbmixture.html✨
mbmixture/json (API)
NEWS
| # Install 'mbmixture' in R: |
| install.packages('mbmixture', repos = c('https://kbroman.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/kbroman/mbmixture/issues
- mbmixdata - Example dataset for mbmixture package
Last updated 2 years agofrom:e930074fd0. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 23 2024 |
| R-4.5-win | OK | Oct 23 2024 |
| R-4.5-linux | OK | Oct 23 2024 |
| R-4.4-win | OK | Oct 23 2024 |
| R-4.4-mac | OK | Oct 23 2024 |
| R-4.3-win | OK | Oct 23 2024 |
| R-4.3-mac | OK | Oct 23 2024 |
Exports:bootstrapNullbootstrapSEmbmix_loglikmle_emle_pmle_pe
Dependencies:numDeriv
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Bootstrap to assess significance | bootstrapNull |
| Bootstrap to get standard errors | bootstrapSE |
| log likelihood function for microbiome mixture | mbmix_loglik |
| Example dataset for mbmixture package | mbmixdata |
| MLE of e for fixed p | mle_e |
| MLE of p for fixed e | mle_p |
| Find MLEs for microbiome mixture | mle_pe |
