Man pages for Holdols/genstats
Analyse genetic data
| assign_snp | Assign SNPs for the subject |
| beta_func | Simulate beta |
| calc_distribution | Calculates the constants parameters for the conditional... |
| collapse_data | Calculates the sum of colunms in a tibble for each person and... |
| control_plot | Plotting estimated liabilities agianst distribution |
| create_fbm | Create and save file backed matrix (FBM) |
| decision_cross | Creates evaluation plot for decision boundary |
| dist_check | Check distribution of liabilities |
| estimate_conf | Estimates liabilities for every configuration in data |
| gen_sim | Simulate genetic data |
| get_cov | Create covariance matrix |
| get_index | Find start and and end index of FBM |
| get_member | Simulate block of snps for each family member |
| get_names | Adds a postfix to given names for each family member |
| G_func_fam | Simulate SNP for all subjects and liabilities for family |
| G_func_simple | Simulate SNP for all subjects |
| gibbs_sampl | Create LTFH estimations for a configuration. |
| GWAS | Computes causal SNP's |
| liabilities_func_fam | Calculate genetic liabilities and simulate enviromental... |
| liabilities_func_simple | Calculate genetic liabilities and simulate enviromental... |
| LTFH | Estimates liabilities for every subject |
| LTFH_plot | Plots estimated liabilities against true liabilities |
| MAF_func | Simulate vector containing minor allele frequencies (MAF) |
| manhattan_plot | Creates a Manhattan plot |
| normalized_prod | Normalize file backed matrix (FBM) |
| no_trunc_estimate | Returns random value from normal distribution. |
| pipe | Pipe operator |
| plot_gibbs | Plot the convergence of gibb_sampl |
| power_plot | Creates a power plot |
| prediction | Predicts the probability of having the given trait |
| pred_model | Trains model on train data given the target vector. |
| PRS_cross | Uses cross validation to train and estimate PRS for each fold |
| prs_plot | Creates evaluation plot for MSE, AUC or r squared |
| scatter_plot | Plots true causal effects against estimated effects |
| sim_fam | Simulate block of snps for whole family |
| snp_attach | Attach rds_file |
| trunc_estimate | Returns truncated random value from normal distribution. |
