R: Implementation of LT-FH++

# Implementation of LT-FH++

## Documentation for package ‘LTFHPlus’ version 2.2.0

- DESCRIPTION file
- Package NEWS
- Package README

## Help Pages

attach_attributes | Attach attributes to a family graphs
construct_covmat | Constructing a covariance matrix for a variable number of phenotypes
construct_covmat_multi | Constructing a covariance matrix for multiple phenotypes
construct_covmat_single | Constructing a covariance matrix for a single phenotype
convert_age_to_cir | Convert age to cumulative incidence rate
convert_age_to_thresh | Convert age to threshold
convert_cir_to_age | Convert cumulative incidence rate to age
convert_format | Attempts to convert the list entry input format to a long format
convert_liability_to_aoo | Convert liability to age of onset
convert_observed_to_liability_scale | Convert the heritability on the observed scale to that on the liability scale
correct_positive_definite | Positive definite matrices
estimate_gen_liability_ltfh | Estimate genetic liability similar to LT-FH
estimate_liability | Estimating the genetic or full liability for a variable number of phenotypes
estimate_liability_multi | Estimating the genetic or full liability for multiple phenotypes
estimate_liability_single | Estimating the genetic or full liability
familywise_attach_attributes | Wrapper to attach attributes to family graphs
fixSexCoding | Fixing sex coding in trio info
get_all_combs | construct all combinations of input vector
get_family_graphs | Automatically identify family members of degree n
get_generations | Compute Generational Distances and Kinship Coefficients from a Family Graph
get_kinship | Construct kinship matrix from graph
get_relatedness | Relatedness between a pair of family members
get_relations | Compute and Label Pairwise Relationships Across Multiple Family Graphs
graph_based_covariance_construction | Constructing covariance matrix from local family graph
graph_based_covariance_construction_multi | Constructing covariance matrix from local family graph for multi trait analysis
graph_to_trio | Convert from igraph to trio information
label_relatives | Label Pairwise Relationships Based on Generational Distance and Kinship Coefficient
prepare_graph | Construct graph from register information
prepare_LTFHPlus_input | Prepares input for 'estimate_liability'
Relation_per_proband_plot | Plot the (Average) Number of Relatives per Proband by Relationship Type
rtmvnorm.gibbs | Gibbs Sampler for the truncated multivariate normal distribution
simulate_under_LTM | Simulate under the liability threshold model.
simulate_under_LTM_multi | Simulate under the liability threshold model (multiple phenotypes).
simulate_under_LTM_single | Simulate under the liability threshold model (single phenotype).
truncated_normal_cdf | CDF for truncated normal distribution.