Description Usage Arguments Value Examples
Creates a summary table of the distribution of the genetic features by a specific outcome/covariate of interest. The difference is tested using Fisher's exact test and further adjusted for multiple comparisons. Note that continuous genetic factors are dichotomized at their median.
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gen.dat |
A matrix or dataframe, with patients as rows and features as columns. |
outcome |
A leveled vector of length equal to the number of rows in gen.dat. |
filter |
a numeric value between 0 and 1 (1 not included) that is the lower bound for the proportion of patients having a genetic event (only for binary features). All features with an event rate lower than that value will be removed. Default is 0 (all features included). |
paired |
Boolean if the data are paired. Default is FALSE. |
cont |
Should the outcome be treated as a continuous value. Default is FALSE treated as categorical. |
rank |
Should the table returned be oredered by Pvalue. Boolean, default is T |
fits : a table of odds ratio and pvalues.
forest.plot : A forest plot of the top 10 hits.
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