Description Usage Arguments Value Examples
Title Performs local alignment between two single-cell gene-expression patterns
1 2 3 | localAlign(x, y = NULL, dist.method = "Euclidean",
step.pattern = symmetric2, distance.only = F, normDist = T,
threshPercent = 0.05, userDefinedThresh = NA, verbose = T, ...)
|
x |
query data matrix: genes on rows and cells on columns OR local cost matrix |
y |
reference data matrix: genes on rows and cells on columns, unused if x is given as a cost matrix |
dist.method |
distance metric, used by the function "dist" in the package 'proxy' |
step.pattern |
a stepPattern object describing the local warping steps allowed with their cost |
distance.only |
only compute distance (no backtrack, faster) |
normDist |
logical; scale distance matrix? |
... |
a list containing: local cost, cost, and step matrices, local alignment
1 | localAlign = function(x, y)
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