StrainRanking v1.2
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Ranking of Pathogen Strains
Regression-based ranking of pathogen strains with respect to their contributions to natural epidemics, using demographic and genetic data sampled in the curse of the epidemics. This package also includes the GMCPIC test.
Functions in StrainRanking
| Name | Description | |
| PathogenCompositionMoryzaeMadagascar | Compositions of Magnaporthe oryzae collected in Madagascar | |
| PathogenCompositionPsyringaeClades | Compositions of Pseudomonas syringae at the clade resolution | |
| DGobj-class | Class "DGobj" | |
| DGobj.rawdata | Construction of a DG object from raw data | |
| PathogenCompositionPsyringaeHaplotypes | Compositions of Pseudomonas syringae at the haplotype resolution | |
| DGobj.simul.mechanistic | Simulation of a DG object under a mechanistic model | |
| PathogenCompositionMoryzaeChina | Compositions of Magnaporthe oryzae collected in China | |
| DGobj.simul.regression | Simulation of a DG object under a regression model | |
| powderymildew | Demographic and genetic real data | |
| PathogenCompositionPtriticinaKalango | Compositions of Puccinia triticina in Kalango crops | |
| StrainRanking-package | Ranking of Pathogen Strains | |
| ranking.strains | Method for ranking pathogen strains | |
| PathogenCompositionPtriticinaGalibier | Compositions of Puccinia triticina in Galibier crops | |
| generation.alpha.3strains | Generation of parameters for the simulations under the regression model | |
| gmcpic.test | Function implementing the Generalized Monte Carlo plug-in test with calibration (GMCPIC test) | |
| PathogenCompositionPsyringaePhylogroups | Compositions of Pseudomonas syringae at the phylogroup resolution | |
| No Results! | ||
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Details
| Type | Package |
| Date | 2017-11-25 |
| License | GPL (>= 2.0) | file LICENSE |
| NeedsCompilation | yes |
| Packaged | 2017-11-27 19:48:57 UTC; samuelsoubeyrand |
| Repository | CRAN |
| Date/Publication | 2017-11-29 23:45:52 UTC |
| depends | graphics , methods , R (>= 3.0.0) , stats |
| Contributors | Tollenaere, E, Laine, S, Soubeyrand, C, Haon-Lasportes, A.-L |
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