`leastCostPathNoBlocks.Rd`

Extracts the minimum cost of a least-cost path by trimming blocks (straight segments of the path that appear in highly dissimilar regions of the sequences). Blocks inflate psi values when two sequences are similar but have very different numbers of rows. This function is for internal use of other functions in the package.

leastCostPathNoBlocks( least.cost.path = NULL, parallel.execution = TRUE )

least.cost.path | dataframe produced by |
---|---|

parallel.execution | boolean, if |

A named list with least cost values.

#'#loading data data(sequenceA) data(sequenceB) #preparing datasets AB.sequences <- prepareSequences( sequence.A = sequenceA, sequence.A.name = "A", sequence.B = sequenceB, sequence.B.name = "B", merge.mode = "complete", if.empty.cases = "zero", transformation = "hellinger" ) #computing distance matrix AB.distance.matrix <- distanceMatrix( sequences = AB.sequences, grouping.column = "id", method = "manhattan", parallel.execution = FALSE ) #computing least cost matrix AB.least.cost.matrix <- leastCostMatrix( distance.matrix = AB.distance.matrix, diagonal = FALSE, parallel.execution = FALSE ) AB.least.cost.path <- leastCostPath( distance.matrix = AB.distance.matrix, least.cost.matrix = AB.least.cost.matrix, parallel.execution = FALSE ) AB.least.cost.path.nb <- leastCostPathNoBlocks( least.cost.path = AB.least.cost.path, parallel.execution = FALSE )