additive_genetic | Build an additive_genetic model |
additive_genetic_animal | Build an additive-genetic animal model |
additive_genetic_competition | Build an additive-genetic competition model |
as.triplet | Represent a symmetric matrix in triplet format |
bispline_incidence | Incidence Matrix of Bidimensional Splines |
breedr_ar | Build an autoregressive model |
breedr_blocks | Build a blocks model |
breedr_effect | Constructor for a generic breedR effect |
breedR.get.HOME | Determine the user's home directory |
breedR.get.USER | Determine the user name |
breedR.option | Set and get global options for breedR |
breedR.os | Check host OS |
breedR.os.32or64bit | test 32/64 bits architecture |
breedR.os.type | Return platform string |
breedR-package | Frequentist and Bayesian methods for breeders, quantitative... |
breedr_progsf90_repo | Default repository for PROGSF90 binaries |
breedR.remote | Perform a job remotely |
breedr_splines | Build a splines model |
build_grid | Build an encompassing grid |
build_pedigree | Build pedigree |
b.values | Breeding values |
check_pedigree | Check the rules for a well-formed pedigree |
check_progsf90 | Checks installation of PROGSF90 binaries |
check_var.ini | Check initial variances specification |
compare.plots | Compare two or more ggplots of the same kind |
competition | Build a virtual competition model |
coordinates_breedR | breedR coordinates methods |
default_initial_variance | Default initial value for variance components |
determine.n.knots | Determine a sensible number of knots |
diagonal | Constructor for a diagonal random effect |
distribute_knots_uniformgrid | Distribute knots uniformly in a grid |
douglas | Multi-site Douglas-fir dataset |
effect_group | Constructor for a group of effects |
effect_type | Type of a (group of) effect(s) |
extract_block | Extract a block of lines from a section of the REML log |
Extract.metagene | Extract or replace data in a metagene object |
fill_holes | Find and fill all the holes in a vector |
fixed | Constructor for a fixed effect |
fixef | Extract fixed-effects estimates |
generic | Build a generic model |
genetic | Build an genetic model |
get_efnames | Get names of effects |
get_ntraits | Extract the number of traits |
get_param | Parameters of a breedR component |
get_pedigree | Get the Pedigree from an object |
get_structure | Covariance structure of a breedR component |
globulus | Eucalyptus Globulus dataset |
install_progsf90 | Install PROGSF90 binary dependencies |
is_numericlog | Test whether a string from a REML log is numeric |
larix | Longitudinal Larix dataset |
loc_grid | Lattice of spatial locations |
m1 | A small Metagene synthesized dataset |
m4 | Metagene synthesized dataset with four generations |
neighbours.at | 'move' an arrangement in a given direction |
ngenerations | Number of generations |
nindividuals | Number of individuals |
node2lattice_mapping | Define mapping between a lattice and nodes |
normalise_coordinates | Normalise coordinates specification |
parse.txtmat | Parse a matrix from a text output robustly |
permanent_environmental_competition | Build an permanent-environmental competition model |
pf90_code_missing | Determine a numeric code for missing observations |
pf90_default_heritability | Default formula for heritability |
plot.remlf90 | Spatial plot of a model's fit components |
progsf90 | progsf90 class |
random | Constructor for a random effect |
ranef | Extract the modes of the random effects |
read.metagene | Metagene Data Input |
remlf90 | Inference with REMLF90 |
remote | Control and view a remote breedR-queue of submitted jobs |
renderpf90 | Render a progsf90 effect |
renderpf90.matrix | Render a sparse matrix into non-zero values and column... |
retrieve_remote | Retrieve results stored in some remote directory |
sim.spatial | Simulate a spatial structure |
simulation | Simulation of phenotypes and model components |
spatial | Build a spatial model |
spatial.plot | Plot an spatially arranged continuous variable |
splat | 'Splat' arguments to a function |
validate_variance | Check properties for a covariance matrix |
variogram | Empirical variograms of residuals |
vcov.remlf90 | Covariance matrix of a fitted remlf90 object |
vgram.matrix | Variogram of a matrix |
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