Description Usage Arguments Details Value See Also Examples
This function identifies a window of compatible SNVs about the focal SNV.
1 | findSNVs(hapMat, focalSNV, minWindow = 1)
|
hapMat |
|
focalSNV |
The column number of the focal in the haplotype data matrix at which to reconstruct the dendrogram. |
minWindow |
Minimum window size of the SNV neighborhood. |
This function starts at the focal SNV, and tries expanding the neighborhood of compatible SNVs. This process is stopped when there are no more compatible SNVs to the left or right of the focal SNV. If the block of compatible SNVs does not have at least a user-defined minimum number of SNVs, this function expands the window to include incompatible SNVs.
Return a list of SNVs in the window with their state of compatiblity to selectWindow
.
selectWindow
, checkCompatible
, getnSNVs
,
getNextFromFocal
, getNextLeftFocal
, getNextRightFocal
1 |
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