Package: poppr 2.9.6
![](https://github.com/grunwaldlab/poppr/raw/main/man/figures/logo.png)
poppr: Genetic Analysis of Populations with Mixed Reproduction
Population genetic analyses for hierarchical analysis of partially clonal populations built upon the architecture of the 'adegenet' package. Originally described in Kamvar, Tabima, and Grünwald (2014) <doi:10.7717/peerj.281> with version 2.0 described in Kamvar, Brooks, and Grünwald (2015) <doi:10.3389/fgene.2015.00208>.
Authors:
poppr_2.9.6.tar.gz
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poppr_2.9.6.tgz(r-4.4-x86_64)poppr_2.9.6.tgz(r-4.4-arm64)poppr_2.9.6.tgz(r-4.3-x86_64)poppr_2.9.6.tgz(r-4.3-arm64)
poppr_2.9.6.tar.gz(r-4.5-noble)poppr_2.9.6.tar.gz(r-4.4-noble)
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poppr.pdf |poppr.html✨
poppr/json (API)
NEWS
# Install 'poppr' in R: |
install.packages('poppr', repos = c('https://zkamvar.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/grunwaldlab/poppr/issues
- Aeut - Oomycete root rot pathogen *Aphanomyces euteiches* AFLP data
- Pinf - Phytophthora infestans data from Mexico and South America.
- Pram - Phytophthora ramorum data from OR Forests and Nurseries
- monpop - Peach brown rot pathogen *Monilinia fructicola*
- old_Pinf - Phytophthora infestans data from Mexico and South America.
- old_partial_clone - Simulated data illustrating a Minimum Spanning Network based on Bruvo's Distance
- partial_clone - Simulated data illustrating a Minimum Spanning Network based on Bruvo's Distance
clonalitygenetic-analysisgenetic-distancesminimum-spanning-networksmultilocus-genotypesmultilocus-lineagespopulation-geneticspopulations
Last updated 4 months agofrom:aa90f4f4e2 (on main). Checks:OK: 8 NOTE: 1. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Aug 14 2024 |
R-4.5-win-x86_64 | OK | Aug 14 2024 |
R-4.5-linux-x86_64 | NOTE | Aug 14 2024 |
R-4.4-win-x86_64 | OK | Aug 14 2024 |
R-4.4-mac-x86_64 | OK | Aug 14 2024 |
R-4.4-mac-aarch64 | OK | Aug 14 2024 |
R-4.3-win-x86_64 | OK | Aug 14 2024 |
R-4.3-mac-x86_64 | OK | Aug 14 2024 |
R-4.3-mac-aarch64 | OK | Aug 14 2024 |
Exports:%>%abootas.genambigas.gencloneas.snpclonebitwise.distbitwise.iaboot.iabootgen2genindbruvo.betweenbruvo.bootbruvo.distbruvo.msnclonecorrectcutoffcutoff_predictorcutoff<-diss.distdistalgodistalgo<-distargsdistargs<-distenvdistenv<-distnamedistname<-diversity_bootdiversity_cidiversity_statsduplicatededwards.distfilter_statsfix_replengenclone2genindgenind2genalexgenotype_curvegetfilegreycurveiaimsnincompinfo_tableinformlociis.cloneis.gencloneis.snpclonejack.ialevelslocus_tablemake_haplotypesmissingnomlgmlg.crosspopmlg.filtermlg.filter<-mlg.idmlg.tablemlg.vectorMLG2dfmllmll.custommll.custom<-mll.levelsmll.levels<-mll.resetmll<-nei.distnmllold2new_genclonepair.iapgenplot_filter_statsplot_poppr_msnpopprpoppr_has_parallelpoppr.allpoppr.amovapoppr.msnpopsubprevosti.distprintprivate_allelesprovesti.distpsexread.genalexrecode_polyploidsresample.iareynolds.distrogers.distrrafrrmlgsamp.iashufflepoptest_replenuniqueupgmavisiblevisible<-win.ia
Dependencies:ade4adegenetapebase64encbootbslibcachemcliclustercolorspacecommonmarkcpp11crayondigestdplyrfansifarverfastmapfontawesomefsgenericsggplot2gluegtablehtmltoolshttpuvigraphisobandjquerylibjsonlitelabelinglaterlatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmepegaspermutepillarpixmappkgconfigplyrpolysatprogressrpromisesR6rappdirsRColorBrewerRcppRcppArmadilloreshape2rlangsassscalessegmentedseqinrshinysourcetoolsspstringistringrtibbletidyselectutf8vctrsveganviridisLitewithrxtable