join.top.regions {pint} | R Documentation |
Select the top models that exceed the threshold and merge the overlapping windows. Useful for interpreting the results.
join.top.regions(model, feature.info, quantile.th = 0.95, augment = FALSE)
model |
Object of ChromosomeModels or GenomeModels class. |
feature.info |
A data frame containing annotations for genes. For instance the geneExp$info table from our example data set (see data(chromosome17)). |
quantile.th |
Threshold to define what quantile of the genes to include in the top region list, based on dependency scores for each gene. |
augment |
If TRUE, list also genes that were not used for modeling but available in the annotations (feature.info) and residing within the same region. |
A list; each element is a vector of gene names that correspond to one continuous region.
Leo Lahti leo.lahti@iki.fi
See citation("pint")
summarize.region.parameters
## NOT RUN # top.regions <- join.top.regions(model, geneExp$info, quantile.th = 0.95)