Files in vincentgarin/mppR
Multi-Parent Population QTL Analysis
.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
NEWS.md
R/CV_partition.R
R/EC_effect.R
R/EC_window_mat.R
R/IBD.mppData.R
R/IBS.mppData.R
R/IncMat_QTL_MAF.R
R/IncMat_cross.R
R/IncMat_parent.R
R/IncMat_sum0_const.R
R/MM_QTL.R
R/MM_comp.R
R/MQE_BackElim.R
R/MQE_CIM.R
R/MQE_CIM_clu.R
R/MQE_R2.R
R/MQE_forward.R
R/MQE_genEffects.R
R/MQE_plot.R
R/MQE_proc.R
R/QC.mppData.R
R/QC_GenotypingError.R
R/QC_MAF.R
R/QC_hetero.R
R/QC_matchMarker.R
R/QC_minCrSize.R
R/QC_missing.R
R/QC_tagMAFCr.R
R/QTLModelBack.R
R/QTLModelCIM.R
R/QTLModelCIM_MQE.R
R/QTLModelPerm.R
R/QTLModelQeff.R
R/QTLModelSIM.R
R/QTL_CI.R
R/QTL_R2.R
R/QTL_R2_GE.R
R/QTL_effect_GE.R
R/QTL_effect_main_QEI.R
R/QTL_effect_main_QxEC.R
R/QTL_forward.R
R/QTL_gen_effects.R
R/QTL_pred_R2.R
R/QTL_pval.R
R/QTL_pval_mix.R
R/QTL_report.R
R/QTL_report_GE.R
R/QTL_select.R
R/Qeff_res_processing.R
R/Qeff_res_processing_MQE.R
R/Qprof_process.R
R/R2_lin.R
R/R2_lin_GE.R
R/R2_pred.R
R/W_QTL.R
R/W_test_Qmain_QEI.R
R/check.MQE.R
R/check.cr.ABH.R
R/check.inf.R
R/check.model.comp.R
R/check.mpp.cv.R
R/check.mpp.proc.R
R/check_IBD.R
R/check_IBS.R
R/check_QC2.R
R/check_format_class.R
R/check_mod_mppGE.R
R/check_ref_par.R
R/cof_mat_reduce.R
R/color.code.R
R/create.mppData.R
R/cross_ABH.R
R/cross_ABH_het.R
R/design_connectectivity.R
R/determine_QEI_sign.R
R/form_QEI_QxEC_mat.R
R/formula_backward.R
R/geno_012.R
R/getVCOV.R
R/inc_mat_QTL.R
R/lme_comp.R
R/mdf_par_name.R
R/mppData_add_pheno.R
R/mppData_mdf_pheno.R
R/mppGE_CIM.R
R/mppGE_SIM.R
R/mppGE_proc.R
R/mpp_CIM.R
R/mpp_CIM_clu.R
R/mpp_CV.R
R/mpp_SIM.R
R/mpp_SIM_clu.R
R/mpp_back_elim.R
R/mpp_forward.R
R/mpp_perm.R
R/mpp_proc.R
R/parent_cluster.mppData.R
R/parent_clusterCheck.R
R/pkg_load_message.R
R/plot.QTLprof.R
R/plot_CV.R
R/plot_QxEC.R
R/plot_allele_eff_GE.R
R/print.summary.QR2Res.R
R/print.summary.QeffRes.R
R/print.summary.mppData.R
R/reference.count.R
R/remove_singularities.R
R/sign.star.R
R/subset.mppData.R
R/summary.QR2Res.R
R/summary.QeffRes.R
R/summary.mppData.R
README.md
cran-comments.md
data/USNAM_geno.rda
data/USNAM_map.rda
data/USNAM_pheno.rda
data/datalist
data/mppData.rda
data/mppData_GE.rda
data/mppData_init.rda
data/par_clu.rda
inst/CITATION
man/CV_partition.Rd
man/EC_effect.Rd
man/IBD.mppData.Rd
man/IBS.mppData.Rd
man/MQE_gen_effects.Rd
man/MQE_proc.Rd
man/QC.mppData.Rd
man/QTL_R2.Rd
man/QTL_R2_GE.Rd
man/QTL_effect_GE.Rd
man/QTL_effect_main_QEI.Rd
man/QTL_effect_main_QxEC.Rd
man/QTL_forward.Rd
man/QTL_gen_effects.Rd
man/QTL_pred_R2.Rd
man/QTL_select.Rd
man/USNAM_geno.Rd
man/USNAM_map.Rd
man/USNAM_pheno.Rd
man/create.mppData.Rd
man/design_connectivity.Rd
man/inc_mat_QTL.Rd
man/mppData.Rd
man/mppData_GE.Rd
man/mppData_add_pheno.Rd
man/mppData_init.Rd
man/mppData_mdf_pheno.Rd
man/mppGE_CIM.Rd
man/mppGE_SIM.Rd
man/mppGE_proc.Rd
man/mpp_CIM.Rd
man/mpp_CV.Rd
man/mpp_SIM.Rd
man/mpp_back_elim.Rd
man/mpp_forward.Rd
man/mpp_perm.Rd
man/mpp_proc.Rd
man/par_clu.Rd
man/parent_cluster.mppData.Rd
man/plot.QTLprof.Rd
man/plot_QxEC.Rd
man/plot_allele_eff_GE.Rd
man/print.summary.QR2Res.Rd
man/print.summary.QeffRes.Rd
man/print.summary.mppData.Rd
man/subset.mppData.Rd
man/summary.QR2Res.Rd
man/summary.QeffRes.Rd
man/summary.mppData.Rd
mppR.Rproj
tests/testthat.R
tests/testthat/test_CIM.R
tests/testthat/test_MQE_proc.R
tests/testthat/test_QTL_R2.R
tests/testthat/test_QTL_gen_effects.R
tests/testthat/test_SIM.R
tests/testthat/test_mpp_back_elim.R
tests/testthat/test_mpp_proc.R
vignettes/MPP_ME_QTL_detect.R
vignettes/MPP_ME_QTL_detect.Rmd
vignettes/MPP_ME_QTL_detect.html
vignettes/bibliography.bib
vignettes/connectivity_example.jpg
vignettes/mppR_gen_vignette.R
vignettes/mppR_gen_vignette.Rmd
vignettes/mppR_gen_vignette.html
vignettes/workflow.JPG
