Package: mbmixture 0.6
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_0.6.tar.gz
mbmixture_0.6.zip(r-4.7)mbmixture_0.6.zip(r-4.6)mbmixture_0.6.zip(r-4.5)
mbmixture_0.6.tgz(r-4.6-any)mbmixture_0.6.tgz(r-4.5-any)
mbmixture_0.6.tar.gz(r-4.7-any)mbmixture_0.6.tar.gz(r-4.6-any)
mbmixture_0.6.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
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 from:9aadf41e40. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 136 | ||
| source / vignettes | OK | 201 | ||
| linux-release-x86_64 | OK | 140 | ||
| macos-release-arm64 | OK | 110 | ||
| macos-oldrel-arm64 | OK | 78 | ||
| windows-devel | OK | 128 | ||
| windows-release | OK | 67 | ||
| windows-oldrel | OK | 85 | ||
| wasm-release | OK | 116 |
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 |
