Man pages for hclimente/martini
GWAS Incorporating Networks in R

athalDescription of the athal dataset.
calculateECalculate the environmental component of the phenotype
calculateGCalculate the genetic component of the phenotype
evoRun evo.
examplegwasDescription of the examplegwas data.
find_conesFind connected explanatory SNPs.
get_evo_settingsGet evo settings.
get_GI_networkGet GI network.
get_GM_networkGet GM network.
get_GS_networkGet GS network.
get_ldCalculate LD in the datasets
get_ppiGet protein-protein interactions.
get_shake_settingsGet shake settings.
get_snp_modulesReturn groups of interconnected SNPs.
ldweight_edgesInclude LD information in the network.
map2bedConverts a MAP data.frame to a BED data.frame
measure_epistasisMeasure epistasis between SNPs
plot_ideogramIdeogram of SConES results.
plot_snp_moduleIdeogram of a SNP module.
run_sconesRun shake.
run_shakeRun shake.
search_conesFind connected explanatory SNPs.
simulate_causal_snpsSimulate causal SNPs
simulate_phenotypeSimulate phenotype
snp2geneMap SNPs to genes.
subnetSubgraph of vertices with an attribute
subvertVertices with an attribute
test_cones_modulesCalculate an empirical p-value for 'find_cones' results.
weight_epistasis_networkIncorporate epistasis into the network
hclimente/martini documentation built on Nov. 20, 2017, 11:54 p.m.