summaryInc {FisHiCal} | R Documentation |
A function to summarize the details of spatial inconsistencies detected with searchInc
.
summaryInc(indices, neighborhoods)
indices |
An integer or integer vector giving the indices of loci (bins) in the corresponding Hi-C matrix for which a summary should be generated |
neighborhoods |
The list of spatial inconsistencies detected by |
A data frame with the following columns, specifying the details for each node in the given detected spatial inconsistencies: chr (chromosome name of node) component (the connected component membership of the node), index (node index), fullName (chromosome name and genomic coordinates of the node), splitChr (chromosome name of the node for which the spatial inconsistency was detected), splitIndex (index of the node for which the spatial inconsistency was detected).
Yoli Shavit
Y. Shavit, F.K. Hamey, P. Lio', FisHiCal: an R package for iterative FISH-based calibration of Hi-C data, 2014 (submitted).
data(spatialInc) summaryInc(1, spatialInc) # empty since no spatial incosistency was detected summaryInc(167, spatialInc) summaryInc(167:173, spatialInc)