| binaryfeaturematrix | Convert a meaning matrix to a binary 'meaning-feature-present' matrix. | 
| check.dist | Check or fix a distance matrix. | 
| count.substring.occurrences | Count occurences of all possible substrings in one more strings. | 
| enumerate.meaningcombinations | Enumerate meaning combinations. | 
| enumerate.substrings | Enumerate all substrings of a string. | 
| hammingdists | Pairwise Hamming distances between matrix rows. | 
| mantel.test | Perform one or more Mantel permutation tests. | 
| mantel.test.default | Perform one or more Mantel permutation tests. | 
| mantel.test.formula | Perform one or more Mantel permutation tests. | 
| mantel.test.list | Perform one or more Mantel permutation tests. | 
| normalisedlevenshteindists | Compute the normalised Levenshtein distances between strings. | 
| orderinsensitivedists | Calculate the bag-of-characters similarity between strings. | 
| page.compute.exact | Page test for monotonicity of ranks. | 
| page.L | Page test for monotonicity of ranks. | 
| page.test | Page test for monotonicity of ranks. | 
| plot.mantel | Perform one or more Mantel permutation tests. | 
| read.dist | Read a distance matrix from a file or data frame. | 
| repmatrix | Extend a matrix by repetition of elements. | 
| segment.counts | Split strings into their constituent segments. | 
| segment.string | Split strings into their constituent segments. | 
| shuffle.locations | Permute the rows and columns of a square matrix. | 
| sm.compositionality | Spike's segmentation and measure of additive compositionality. | 
| sm.segmentation | Spike's segmentation and measure of additive compositionality. | 
| ssm.compositionality | Find a segmentation that maximises the overall string coverage across all signals. | 
| ssm.segmentation | Find a segmentation that maximises the overall string coverage across all signals. | 
| temperature.colors | Create a vector of 'temperature' colors (from blue over white to red). | 
| wrap.meaningdistfunction | Make a meaning distance function vectorisable. |