Multi-Parent Population QTL Analysis


[Up] [Top]

Documentation for package ‘mppR’ version 1.1.10

Help Pages

create.mppData Create a multi-parent population data object
CV_partition Cross validation partition
design_connectivity Connected parts of a MPP design
IBD.mppData IBD coding for 'mppData' objects
IBS.mppData IBS coding for 'mppData' objects
inc_mat_QTL QTL incidence matrix
mppData Complete 'mppData' object
mppData_init 'mppData' object with raw data
mpp_back_elim Backward elimination on QTL candidates
mpp_CIM MPP Composite Interval Mapping
mpp_CV MPP cross-validation
mpp_perm QTL significance threshold by permutation
mpp_proc MPP QTL analysis
mpp_SIM MPP Simple Interval Mapping
MQE_proc Multi-QTL effect MPP analysis
parent_cluster.mppData Parent clustering for 'mppData' objects
par_clu Parental clustering
plot.QTLprof plot QTL profile
print.summary.mppData Print summary.mppData object
print.summary.QeffRes Print summary.QeffRes object
print.summary.QR2Res Print summary.QR2Res object
QC.mppData Quality control for 'mppData' objects
QTL_gen_effects QTL genetic effects
QTL_pred_R2 Predicted QTL global and partial R squared
QTL_R2 QTL global and partial R squared
QTL_select QTL candidates selection
subset.mppData Subset 'mppData' object
summary.mppData Summary of 'mppData' object
summary.QeffRes Summary of 'QeffRes' object
summary.QR2Res Summary of 'QR2Res' object
USNAM_geno Reduced genotype data maize US-NAM population
USNAM_map Reduced map maize US-NAM population
USNAM_pheno Reduced phenotype data from Maize US-NAM population