| SOM Toolbox |
[ Grouped by function | Alphabetical order ]
NOTE: The same help can be found from the functions themselves (in most cases).
Try command 'help <function_name>' or 'type <function_name>' in Matlab prompt.
| Contents | Overview of SOM Toolbox functions |
| Copyright.txt | Copyright notice |
| License.txt | GNU General Public License |
| cca | curvilinear component analysis projection algorithm |
| db_index | Davies-Bouldin validity index of clustering |
| hits | calculates hits, or sum of values for each map unit |
| iris.data | IRIS data set (used in demos) |
| kmeans | k-means algorithm |
| kmeans_clusters | try and evaluate several k-means clusterings |
| knn | k-NN classification algorithm |
| knn_old | k-NN classification algorithm (old version) |
| lvq1 | LVQ1 algorithm |
| lvq3 | LVQ3 algorithm |
| nanstats | mean, std and median which ignore NaNs |
| neural_gas | neural gas vector quantization algorithm |
| pcaproj | principal component projection algorithm |
| preprocess | preprocessing GUI |
| rep_utils | various utilities for printing report elements |
| sammon | Sammon's mapping projection algorithm |
| som_autolabel | automatically labels the SOM based on given data |
| som_barplane | bar chart visualization of map |
| som_batchtrain | batch training algorithm |
| som_bmucolor | colors of the BMUs from a given map color code |
| som_bmus | calculates BMUs for given data vectors |
| som_cldist | calculate distances between clusters |
| som_clget | get stuff from a cluster struct |
| som_cllinkage | hierarchical clustering of SOM |
| som_clplot | plots of clusters (based on cluster struct) |
| som_clset | set properties in a cluster struct |
| som_clspread | spreads clusters to unassinged map units |
| som_clstruct | create a cluster struct |
| som_clustercolor | color coding which depends on clustering structure |
| som_cod2ind | from SOM_linear index to SOM_PAK linear index |
| som_colorcode | create color coding for map/2D data |
| som_coloring | a SOM-based color coding |
| som_connection | connection matrix for map |
| som_cplane | component planes and U-matrices |
| som_data_struct | create & initialize a data struct |
| som_demo1 | SOM Toolbox demo 1: basic properties |
| som_demo2 | SOM Toolbox demo 2: basic usage |
| som_demo3 | SOM Toolbox demo 3: visualization |
| som_demo4 | SOM Toolbox demo 4: data analysis |
| som_dendrogram | visualization of clustering tree |
| som_denormalize | denormalize data set |
| som_distortion | SOM distortion measure |
| som_distortion3 | elements of the SOM distortion measure |
| som_divide | extract subsets of data based on map |
| som_dmatclusters | distance (or U-) matrix based clustering |
| som_dmatminima | local minima from distance (or U-) matrix |
| som_dreval | evaluate descriptive rules for a cluster |
| som_drmake | calculate descriptive rules for a cluster |
| som_drsignif | rule significance measures |
| som_estimate_gmm | create Gaussian mixture model on top of SOM |
| som_eucdist2 | pairwise squared euclidian distances between vectors |
| som_fillnans | fill NaNs in a data set based on given SOM |
| som_fuzzycolor | a fuzzy color coding |
| som_gapindex | gap validity index of clustering |
| som_grid | visualization of SOM grid |
| som_gui | SOM initialization and training GUI |
| som_hits | calculates the response of data on the map |
| som_ind2cod | from linear index to SOM_PAK linear index |
| som_ind2sub | from linear index to subscript index |
| som_info | print out information on a given struct |
| som_kmeanscolor | color coding according to k-means clustering |
| som_kmeanscolor2 | a newer version of the som_kmeanscolor function |
| som_label | give labels to map units |
| som_label2num | rcodes string data labels to interger class labels |
| som_lininit | linear initialization algorithm |
| som_linkage | hierarchical clustering algorithms |
| som_make | create, initialize and train a SOM |
| som_map_struct | create & initialize a map struct |
| som_mdist | calculates pairwise distances between vectors |
| som_modify_dataset | add, remove, or extract samples and components |
| som_neighborhood | calculates neighborhood matrix for the given map |
| som_neighbors | calculates different kinds of neighborhoods |
| som_neighf | calculates neighborhood function values |
| som_norm_variable | (de)normalize one variable |
| som_normalize | normalize data set |
| som_normcolor | simulate indexed colormap |
| som_order_cplanes | order and visualize the component planes |
| som_pieplane | pie chart visualization of map |
| som_plotmatrix | pairwise scatter plots and histograms |
| som_plotplane | plot chart visualization of map |
| som_probability_gmm | evaluate Gaussian mixture model |
| som_projections | calculates a default set of projections |
| som_projections_plot | projections plots (see som_projections) |
| som_prototrain | a simple version of sequential training: easy to modify |
| som_quality | quantization and topographic error of SOM |
| som_randinit | random initialization algorithm |
| som_read_cod | reads a SOM_PAK format codebook file |
| som_read_data | reads a (SOM_PAK format) ASCII data file |
| som_recolorbar | refresh/reconfigure colorbars |
| som_select | GUI for manual selection of map units |
| som_seqtrain | sequential training algorithm |
| som_set | create & set (& check) values to structs |
| som_show | basic visualization |
| som_show_add | add labels, hits and trajectories |
| som_show_clear | remove extra markers |
| som_show_gui | GUI for using som_show and associated functions |
| som_sompaktrain | uses SOM_PAK to train a map |
| som_stats | statistics of a data set |
| som_stats_plot | plots of statistics (see som_stats) |
| som_stats_report | report on data set statistics |
| som_stats_table | a table of data set statistics |
| som_sub2ind | from subscript index to linear index |
| som_supervised | supervised SOM algorithm |
| som_table_modify | modifies a table struct |
| som_table_print | print a table in various formats |
| som_table_struct | creates a table struct |
| som_topol_struct | create & initialize a topology struct |
| som_train_struct | create & initialize a train struct |
| som_trajectory | launches a GUI for presenting comet-trajectories |
| som_umat | calculates the U-matrix |
| som_unit_coords | calculates coordinates in output space for map units |
| som_unit_dists | distances in output space between map units |
| som_unit_neighs | units in 1-neighborhood for each map unit |
| som_vis_coords | map unit coordinates used in visualizations |
| som_vs1to2 | converts a version 1.0 struct to version 2.0 struct |
| som_vs2to1 | converts a version 2.0 struct to version 1.0 struct |
| som_write_cod | writes a SOM_PAK format data file |
| som_write_data | writes a SOM_PAK format codebook file |
| sompak_gui | GUI for using SOM_PAK from Matlab |
| sompak_init | call SOM_PAK's initialization programs from Matlab |
| sompak_init_gui | GUI for using SOM_PAK's initialization from Matlab |
| sompak_rb_control | an auxiliary function for sompak_*_gui functions. |
| sompak_sammon | call SOM_PAK's Sammon program from Matlab |
| sompak_sammon_gui | GUI for using SOM_PAK's Sammon program from Matlab |
| sompak_train | call SOM_PAK's training program from Matlab |
| sompak_train_gui | GUI for using SOM_PAK's training program from Matlab |
| somtoolbox | this file |
| vis_PlaneAxisProperties | set axis properties in visualization functions |
| vis_footnote | adds a movable text to the current figure |
| vis_footnoteButtonDownFcn | callback function for vis_footnote.m |
| vis_patch | defines hexagonal and rectangular patches |
| vis_planeGetArgs | converts topol struct to lattice, msize argument pair |
| vis_show_gui_comp | internal function used by som_show_gui.m |
| vis_show_gui_tool | internal function used by som_show_gui.m |
| vis_som_show_data | returns UserData and subplot handles stored by som_show.m |
| vis_trajgui | the actual GUI started by som_trajectory.m |
| vis_valuetype | used for type checks |