Files in sa-lee/starmie
Population Structure Model Inference and Visualisation
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
R/admix.R
R/averagePairWiseSimilarityH.R
R/averageQ.R
R/bestK.R
R/clumpak.R
R/clumpp.R
R/fineStruct.R
R/get-methods.R
R/loadAdmixture.R
R/loadFineStructure.R
R/loadStructure.R
R/plotBar.R
R/plotFineStructDendro.R
R/plotMCMC.R
R/plotMDS.R
R/plotMultiK.R
R/plotPWCoancestry.R
R/plotPWCoincidence.R
R/plotTreeBar.R
R/run-structure.R
R/simulateQmatrix.R
R/struct.R
README.Rmd
README.md
cran-comments.md
inst/extdata/fine_structure_files/EastAsiaSimple.EMlinked.chunkcounts.out
inst/extdata/fine_structure_files/EastAsiaSimple.EMlinked.mapstate.csv
inst/extdata/fine_structure_files/EastAsiaSimple.EMlinked.mcmc.xml
inst/extdata/fine_structure_files/EastAsiaSimple.EMlinked.meancoincidence.csv
inst/extdata/fine_structure_files/EastAsiaSimple.EMlinked.tree.xml
inst/extdata/hapmap3_files/hapmap3.1.P
inst/extdata/hapmap3_files/hapmap3.1.Q
inst/extdata/hapmap3_files/hapmap3.2.P
inst/extdata/hapmap3_files/hapmap3.2.Q
inst/extdata/hapmap3_files/hapmap3.3.P
inst/extdata/hapmap3_files/hapmap3.3.Q
inst/extdata/hapmap3_files/hapmap3.3.Q_bias
inst/extdata/hapmap3_files/hapmap3.3.Q_se
inst/extdata/hapmap3_files/hapmap3.4.P
inst/extdata/hapmap3_files/hapmap3.4.Q
inst/extdata/hapmap3_files/hapmap3.5.P
inst/extdata/hapmap3_files/hapmap3.5.Q
inst/extdata/hapmap3_files/hapmap3.fam
inst/extdata/hapmap3_files/hapmap3.map
inst/extdata/hapmap3_files/log1.out
inst/extdata/hapmap3_files/log2.out
inst/extdata/hapmap3_files/log3.out
inst/extdata/hapmap3_files/log4.out
inst/extdata/hapmap3_files/log5.out
inst/extdata/microsat_testfiles/chain_K10.log
inst/extdata/microsat_testfiles/chain_K6.log
inst/extdata/microsat_testfiles/extraparams
inst/extdata/microsat_testfiles/locprior.str
inst/extdata/microsat_testfiles/locprior_K1.out_f
inst/extdata/microsat_testfiles/locprior_K10.out_f
inst/extdata/microsat_testfiles/locprior_K2.out_f
inst/extdata/microsat_testfiles/locprior_K3.out_f
inst/extdata/microsat_testfiles/locprior_K4.out_f
inst/extdata/microsat_testfiles/locprior_K5.out_f
inst/extdata/microsat_testfiles/locprior_K6.out_f
inst/extdata/microsat_testfiles/locprior_K7.out_f
inst/extdata/microsat_testfiles/locprior_K8.out_f
inst/extdata/microsat_testfiles/locprior_K9.out_f
inst/extdata/microsat_testfiles/mainparams
inst/extdata/microsat_testfiles/run10_chain_K10.log
inst/extdata/microsat_testfiles/run10_locprior_K10.out_f
inst/extdata/microsat_testfiles/run2_chain_K10.log
inst/extdata/microsat_testfiles/run2_chain_K6.log
inst/extdata/microsat_testfiles/run2_locprior_K1.out_f
inst/extdata/microsat_testfiles/run2_locprior_K10.out_f
inst/extdata/microsat_testfiles/run2_locprior_K2.out_f
inst/extdata/microsat_testfiles/run2_locprior_K3.out_f
inst/extdata/microsat_testfiles/run2_locprior_K4.out_f
inst/extdata/microsat_testfiles/run2_locprior_K5.out_f
inst/extdata/microsat_testfiles/run2_locprior_K6.out_f
inst/extdata/microsat_testfiles/run2_locprior_K7.out_f
inst/extdata/microsat_testfiles/run2_locprior_K8.out_f
inst/extdata/microsat_testfiles/run2_locprior_K9.out_f
inst/extdata/microsat_testfiles/run3_chain_K10.log
inst/extdata/microsat_testfiles/run3_locprior_K10.out_f
inst/extdata/microsat_testfiles/run4_chain_K10.log
inst/extdata/microsat_testfiles/run4_locprior_K10.out_f
inst/extdata/microsat_testfiles/run5_chain_K10.log
inst/extdata/microsat_testfiles/run5_locprior_K10.out_f
inst/extdata/microsat_testfiles/run6_chain_K10.log
inst/extdata/microsat_testfiles/run6_locprior_K10.out_f
inst/extdata/microsat_testfiles/run7_chain_K10.log
inst/extdata/microsat_testfiles/run7_locprior_K10.out_f
inst/extdata/microsat_testfiles/run8_chain_K10.log
inst/extdata/microsat_testfiles/run8_locprior_K10.out_f
inst/extdata/microsat_testfiles/run9_chain_K10.log
inst/extdata/microsat_testfiles/run9_locprior_K10.out_f
inst/vignette-supp/clump-example-1.png
inst/vignette-supp/evanno-lyf-1.png
inst/vignette-supp/evanno-lyf-2.png
inst/vignette-supp/mcmc1-1.png
inst/vignette-supp/plot-bar-1.png
inst/vignette-supp/plot-bar2-1.png
inst/vignette-supp/plot-multiK-1.png
inst/vignette-supp/plotMDS-1.png
inst/vignette-supp/unnamed-chunk-2-1.png
inst/vignette-supp/unnamed-chunk-5-1.png
man/admix.Rd
man/admixList.Rd
man/averagePairWiseSimilarityH.Rd
man/averageQ.Rd
man/bestK.Rd
man/clumpak.Rd
man/clumpp.Rd
man/exampleAdmixture.Rd
man/exampleStructure.Rd
man/fineStruct.Rd
man/getClusterAlleleFreqMat.Rd
man/getCompleteAlleleFreqMat.Rd
man/getD.Rd
man/getK.Rd
man/getQ.Rd
man/getStephens.Rd
man/loadAdmixture.Rd
man/loadFineStructure.Rd
man/loadStructure.Rd
man/plotBar.Rd
man/plotFineStructDendro.Rd
man/plotMCMC.Rd
man/plotMDS.Rd
man/plotMultiK.Rd
man/plotPWCoancestry.Rd
man/plotPWCoincidence.Rd
man/plotTreeBar.Rd
man/runStructure.Rd
man/simulateQ.Rd
man/struct.Rd
man/structList.Rd
starmie.Rproj
tests/testthat.R
tests/testthat/test-bestK.R
tests/testthat/test-clumpp.R
tests/testthat/test-loadAdmixture.R
tests/testthat/test-loadStructure.R
tests/testthat/test-plotMCMC.R
vignettes/using-starmie-admixture.Rmd
vignettes/using-starmie.Rmd
