Package: indelmiss 1.0.10
Utkarsh J. Dang
indelmiss: Insertion Deletion Analysis While Accounting for Possible Missing Data
Genome-wide gene insertion and deletion rates can be modelled in a maximum likelihood framework with the additional flexibility of modelling potential missing data using the models included within. These models simultaneously estimate insertion and deletion (indel) rates of gene families and proportions of "missing" data for (multiple) taxa of interest. The likelihood framework is utilized for parameter estimation. A phylogenetic tree of the taxa and gene presence/absence patterns (with data ordered by the tips of the tree) are required. See Dang et al. (2016) <doi:10.1534/genetics.116.191973> for more details.
Authors:
indelmiss_1.0.10.tar.gz
indelmiss_1.0.10.tar.gz(r-4.5-noble)indelmiss_1.0.10.tar.gz(r-4.4-noble)
indelmiss_1.0.10.tgz(r-4.4-emscripten)indelmiss_1.0.10.tgz(r-4.3-emscripten)
indelmiss.pdf |indelmiss.html✨
indelmiss/json (API)
NEWS
| # Install 'indelmiss' in R: |
| install.packages('indelmiss', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- gardnerelladata - Gardnerella vaginalis phyletic data (gene family memberships) and phylogenetic tree
- mycobacteriumdata1 - Mycobacterium data phyletic data (gene family memberships) and tree
- mycobacteriumdata2 - Alternate Mycobacterium tree.
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 1 years agofrom:43874bb400. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Aug 26 2024 |
| R-4.5-linux-x86_64 | OK | Aug 26 2024 |
Exports:indelratesplot.indelmissplotpplotratesplottreeprint.indelmiss
Dependencies:apeclicpp11digestfastmatchgenericsglueigraphlatticelifecyclemagrittrMatrixnlmenumDerivphangornpkgconfigquadprogRcpprlangvctrs
