Man pages for tkonopka/MultiPattern
Multi-Pattern Discovery Framework
| canberra.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| checkArgClass | check that an object is of the epected class, or stop |
| checkNotNull | check that object x is not null, or stop |
| dbscan.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| dist.canberra | Canberra distance |
| dist.clust | Distance that incorporates weights from a clustering (hclust... |
| dist.correlation | Compute dissimilarity using correlation |
| dist.dbscan | Distance that incorporates weights from a dbscan clustering |
| dist.euclidean | Euclidean distance |
| dist.hamming | Hamming distance |
| dist.log2euclidean | Euclidean distance of log2 transformed values |
| dist.manhattan | Manhattan distance |
| dist.pc1 | Distance using 1st principal component from PCA |
| dist.pearson | Compute distance using pearson correlation r |
| dist.spearman | Compute distance using spearman rho |
| euclidean.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| hamming.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| hclust.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| ica.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| manhattan.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| MPaddConfig | Add one or more cluster configurations into a MultiPattern... |
| MPaddData | Add a dataset into a MultiPattern configuration object |
| MPchangeSettings | Change settings encoded in a MultiPattern object |
| MPcutree | Provides a cut of hclust into k clusters |
| MPdata1L | Toy dataset with one group (large) |
| MPdata1M | Toy dataset with one group (medium) |
| MPdata1S | Toy dataset with one group (small) |
| MPdata2L | Toy dataset with two groups (large) |
| MPdata2M | Toy dataset with two groups (medium) |
| MPdata2S | Toy dataset with two groups (small) |
| MPdata3L | Toy dataset with three groups (large) |
| MPdata3M | Toy dataset with three groups (medium) |
| MPdata3S | Toy dataset with three groups (small) |
| MPdata4L | Toy dataset with four groups (large) |
| MPdata4M | Toy dataset with four groups (medium) |
| MPdata4S | Toy dataset with four groups (small) |
| MPdata6L | Toy dataset with six groups (large) |
| MPdata6M | Toy dataset with six groups (medium) |
| MPdata6S | Toy dataset with six groups (small) |
| MPdata9L | Toy dataset with nine groups (large) |
| MPdata9M | Toy dataset with nine groups (medium) |
| MPdata9S | Toy dataset with nine groups (small) |
| MPdefaultSettings | Summary of default settings for new MultiPattern objects |
| MPdistFactory | Generates a function with syntax f(x) that returns a dist... |
| MPdistImpute | Impute values for NAs in a dist object |
| MPeasyConfig | Add predefined configuration types to a MultiPattern... |
| MPgetAll2Subspaces | obtain a list of all pairs from a set |
| MPgetAverageMetaDistance | Compute a meta distance object from an MP object. Uses... |
| MPgetDistances | Run MultiPattern analysis. |
| MPgetMap | Create a map for a distance object/matrix |
| MPgetMetaDistance | Compare MultiPattern similarity matrices |
| MPgetRandomSubspaces | Produce a list of randomly selected feature sets |
| MPgetRepresentatives | Identify representative points from a distance object |
| MPimputeNAs | Impute values for NAs in a matrix or other object |
| MPlistPlugins | Get of MultiPattern plugins available |
| MPmakePrepFunction | Create a function for preprocessing a dataset before... |
| MPmatrixColNorm | Normalize a matrix column-wise by median shift and division... |
| MPnew | Create a basic MP object |
| MPPartitionFeatures | Partition features in a data matrix into categories like... |
| MPplotmap | Custom function to draw mds maps. Uses Rcssplot and some hard... |
| MPplotScatterWithK | plot a 2D scatter diagram with clusters in various style |
| MPplotScatterWithLinks | plot a 2D scatter diagram with clusters in various style |
| MPrandomizeMatrix | Permute values in a matrix |
| MPrankNeighbors | Compute non-parametric neighborhoods of data elements using... |
| MPremove | Remove data or configuration components from a MultiPattern... |
| MPsquarelim | Create equal size xlim and ylim intervals from x,y values |
| MPsuggestConfig | Suggest a set of clustering analyses for a dataset |
| MPsuggestTopFeatures | Make a suggestion for interesting features in a dataset based... |
| nmf.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| pam.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| pca.ica.helper | helper function to fastica and pca plugins; first few... |
| pca.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| pearson.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| print.MultiPattern | Print a summary of a MP configuration object |
| print.MultiPatternSettings | Print a summary of a MP distances objects |
| print.MultiPatternSimilarities | Print a summary of a MP distances objects |
| rpca.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| spearman.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| subspace1.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| subspace2.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
| subspacer.MultiPatternPlugin | Add a set of configurations to a MultiPattern object |
