localAlign: Title Performs local alignment between two single-cell...

In lindsaysmoore/cellAlign: Global and local alignment of single cell trajectories

Description

Title Performs local alignment between two single-cell gene-expression patterns

Usage

localAlign(x, y = NULL, dist.method = "Euclidean",
  step.pattern = symmetric2, distance.only = F, normDist = T,
  threshPercent = 0.05, userDefinedThresh = NA, verbose = T, ...)

Arguments

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?
...

Value

a list containing: local cost, cost, and step matrices, local alignment

Examples

localAlign = function(x, y)

lindsaysmoore/cellAlign documentation built on May 29, 2019, 3:42 a.m.