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
sa-lee/starmie documentation built on May 25, 2017, 10:21 p.m.