Man pages for martini
GWAS Incorporating Networks
| arrange_covars | Prepare covariates for 'scones' |
| calculateE | Calculate the environmental component of the phenotype |
| calculateG | Calculate the genetic component of the phenotype |
| check_installed | Check package is installed |
| encode_gwas | Change encoding of dataset |
| evo | Run evo. |
| get_evo_settings | Get evo settings. |
| get_GI_network | Get gene-interaction network. |
| get_GM_network | Get gene membership network. |
| get_GS_network | Get genomic sequence network. |
| get_ppi | Get protein-protein interactions. |
| get_snp_modules | Return groups of interconnected SNPs. |
| is_coherent | Check inner coherence of GWAS dataset |
| ldweight_edges | Include linkage disequilibrium information in the network. |
| minigwas | Description of the minigwas dataset. |
| minippi | PPIs for the minigwas dataset. |
| minisnpMapping | Genes for the minigwas dataset. |
| parse_scones_settings | Parse 'scones.cv' settings. |
| permute_snpMatrix | Permute samples |
| run_scones | Run shake. |
| scones | Find connected explanatory SNPs. |
| scones.cv | Find connected explanatory SNPs. |
| score_fold | Score the solutions of a k-fold |
| search_cones | Find connected explanatory SNPs. |
| simulate_causal_snps | Simulate causal SNPs |
| simulate_phenotype | Simulate phenotype |
| single_snp_association | Calculate genotype-phhenotype associations |
| snp2gene | Map SNPs to genes. |
| subnet | Subgraph of vertices with an attribute |
| subvert | Vertices with an attribute |
| test_cones_modules | Calculate an empirical p-value for 'find_cones' results. |
