

All functions 

cosmo align skl 
find permutation so that values in two inputs are matched 
cosmo anova feature selector skl 
find the features that show the most variance between classes 
cosmo average samples skl 
average subsets of samples by unique combinations of sample attributes 
cosmo balance dataset skl 
subsample a dataset to have an equal number of samples for each target 
cosmo balance partitions skl 
balances a partition so that each target occurs equally often in each training and test chunk 
cosmo cartprod skl 
returns the cartesian product with all combinations of the input 
cosmo check dataset skl 
Check consistency of a dataset. 
cosmo check external skl 
Checks whether a certain external toolbox exists, or list citation info 
cosmo check neighborhood skl 
check that a neighborhood is kosher 
cosmo check partitions skl 
check whether partitions are balanced and not doubledippy 
cosmo chunkize skl 
assigns chunks that are as balanced as possible based on targets. 
cosmo classify knn skl 
knearest neighbor classifier 
cosmo classify lda skl 
linear discriminant analysis classifier  without prior 
cosmo classify libsvm skl 
libsvmbased SVM classifier 
cosmo classify matlabsvm 2class skl 
svm classifier wrapper (around svmtrain/svmclassify) 
cosmo classify matlabsvm skl 
SVM multiclassifier using matlab’s SVM implementation 
cosmo classify meta feature selection skl 
meta classifier that uses feature selection on the training data 
cosmo classify naive bayes skl 
naive bayes classifier 
cosmo classify nn skl 
nearest neighbor classifier 
cosmo classify svm skl 
classifier wrapper that uses either matlab’s or libsvm’s SVM. 
cosmo cluster neighborhood skl 
define neighborhood suitable for clusterbased analysis 
cosmo clusterize skl 
fast depthfirst clustering based on equal values of neighbors 
cosmo config skl 
return a struc with configuration settings, or store such settings 
cosmo confusion matrix skl 
Returns a confusion matrix 
cosmo convert neighborhood skl 
Converts between cell, matrix and struct representations of neighborhoods 
cosmo corr skl 
Computes correlation  faster than than matlab’s “corr” for Pearson. 
cosmo correlation measure skl 
Computes a splithalf correlation measure 
cosmo cross neighborhood skl 
cross neighborhoods along dataset dimensions 
cosmo crossvalidate skl 
performs crossvalidation using a classifier 
cosmo crossvalidation measure skl 
performs crossvalidation using a classifier 
cosmo dataset slice fa skl 
Slice a dataset by features (columns) [deprecated] 
cosmo dataset slice sa skl 
Slice a dataset by samples (rows) [deprecated] 
cosmo dim find skl 
find dimension attribute in dataset 
cosmo dim generalization measure skl 
measure generalization across pairwise combinations over time (or any other dimension) 
cosmo dim insert skl 
insert a dataset dimension 
cosmo dim match skl 
return a mask indicating match of dataset dimensions with values 
cosmo dim prune skl 
prune dataset dimension values that are not used after slicing 
cosmo dim remove skl 
remove a dataset dimension 
cosmo dim rename skl 
rename dimension attribute name 
cosmo dim slice skl 
slice and prune a dataset with dimension attributes [deprecated] 
cosmo dim transpose skl 
move a dataset dimension from samples to features or vice versa 
cosmo dir skl 
list files recursively in a directory 
cosmo disp skl 
display the input as a string representation 
cosmo dissimilarity matrix measure skl 
Compute a dissimilarity matrix measure 
cosmo distatis skl 
apply DISTATIS measure to each feature 
cosmo find local extrema skl 
find local extrema in a dataset using a neighborhood 
cosmo flatten skl 
flattens an arbitrary array to a dataset structure 
cosmo fmri convert xform skl 
convert xform code between numeric and string in fmri dataset 
cosmo fmri dataset skl 
load an fmri volumetric dataset 
cosmo fmri deoblique skl 
deoblique a dataset 
cosmo fmri orientation skl 
get orientation of a dataset 
cosmo fmri reorient skl 
Change the orientation of an fmri dataset 
cosmo fx skl 
apply a function to unique combinations of .sa or .fa values 
cosmo independent samples partitioner skl 
Compute partitioning scheme based on dataset with independent samples 
cosmo index unique skl 
index unique (combinations of) elements 
cosmo interval neighborhood skl 
compute neighborhoods stretching intervals 
cosmo isequaln skl 
compares two input for equality with NaNs considered being equal 
cosmo isfield skl 
checks the presence of (possibly nested) fieldnames in a struct 
cosmo make temp filename skl 
give temporary filename that does not exist when this function is called 
cosmo map2fmri skl 
maps a dataset structure to a NIFTI, AFNI, or BV structure or file 
cosmo map2meeg skl 
maps a dataset to a FieldTrip or EEGlab structure or file 
cosmo map2surface skl 
maps a dataset structure to AFNI/SUMA NIML dset or BV SMP file 
cosmo map pca skl 
normalize dataset either by estimating or applying estimated parameters 
cosmo mask dim intersect skl 
find intersection mask across a set of datasets 
cosmo match skl 
returns a mask indicating matching occurences in two arrays or cells relative to the second array 
cosmo measure clusters skl 
General cluster measure 
cosmo meeg baseline correct skl 
correct baseline of MEEG dataset 
cosmo meeg chan neighborhood skl 
determine neighborhood of channels in MEEG dataset 
cosmo meeg chan neighbors skl 
find neighbors of MEEG channels 
cosmo meeg chantype skl 
return channel types and optionally a feature mask matching a type 
cosmo meeg dataset skl 
Returns a dataset structure based on MEEG data 
cosmo meeg find layout skl 
finds an MEEG channel layout associated with a dataset 
cosmo meeg layout collection skl 
return supported MEEG channel layouts 
cosmo meeg read layout skl 
Read FieldTrip layout 
cosmo meeg senstype2layout mapping skl 
return mapping from MEEG sensor types to sensor layouts 
cosmo meeg senstype collection skl 
return supported MEEG acquisition systems and their channel labels 
cosmo meta feature selection classifier skl 
meta classifier that uses feature selection on the training data [deprecated] 
cosmo montecarlo cluster stat skl 
compute randomeffect cluster statistics corrected for multiple comparisons 
cosmo montecarlo phase stat skl 
compute phase statistics based on Monte Carlo simulation 
cosmo naive bayes classifier searchlight skl 
Run (fast) Naive Bayes classifier searchlight with crossvalidation 
cosmo nchoosek partitioner skl 
partitions for into nchoosek(n,k) parititions with optional grouping schemas. 
cosmo neighborhood split skl 
partitions a neighborhood in a cell with (smaller) neigborhoods 
cosmo nfold partitioner skl 
generates an nfold partition scheme 
cosmo normalize skl 
normalize dataset either by estimating or applying estimated parameters 
cosmo norminv skl 
compute inverse normal cumulative distribution function 
cosmo notify test skipped skl 
notify that a test in the test suite is skipped 
cosmo oddeven partitioner skl 
generates an oddeven partition scheme 
cosmo overlap skl 
compute overlap between vectors or cellstrings in two cells 
cosmo parallel get nproc available skl 
get number of processes available from Matlab parallel processing pool 
cosmo parcellfun skl 
applies a function to elements in a cell in parallel 
cosmo pca skl 
Principal Component Analysis 
cosmo pdist skl 
compute pairwise distance between samples in a matrix 
cosmo phase itc skl 
compute phase inter trial coherence 
cosmo phase stat skl 
Compute phase perturbation, or opposition sum or product phase statistic 
cosmo plot slices skl 
Plots a set of slices from a dataset, nifti image, or 3D data array 
cosmo publish run scripts skl 
helper function to publish example scripts (for developers) 
cosmo rand skl 
generate uniform pseudorandom numbers, optionally using a seed value 
cosmo randomize targets skl 
provides randomized target labels 
cosmo randperm skl 
generate random permutation of integers 
cosmo remove useless data skl 
remove ‘useless’ (constant and/or nonfinite) samples or features 
cosmo run tests skl 
run unit and documentation tests 
cosmo sample unique skl 
sample without replacement from subsets of integers in balanced manner 
cosmo searchlight skl 
Generic searchlight function returns a map of results computed at each searchlight location 
cosmo set path skl 
set the matlab path for CoSMoMVPA 
cosmo show progress skl 
Shows a progress bar, and time elapsed and expected to complete. 
cosmo skip test if no external skl 
Notify that test in the test suite is skipped if no external is present 
cosmo slice skl 
Slice a dataset by samples (the default) or features 
cosmo sphere offsets skl 
computes sub index offsets for voxels in a sphere 
cosmo spherical neighborhood skl 
computes neighbors for a spherical searchlight 
cosmo split skl 
splits a dataset by unique values in (a) sample or feature attribute(s). 
cosmo squareform skl 
converts pairwise distances between matrix and vector form 
cosmo stack skl 
stacks multiple datasets to yield a single dataset 
cosmo stat skl 
compute ttest or Ftest (ANOVA) statistic 
cosmo statcode skl 
Convert statcode for different analysis packages 
cosmo strjoin skl 
joins strings using a delimeter string 
cosmo strsplit skl 
splits a string based on another delimeter string 
cosmo structjoin skl 
joins values in structs or keyvalue pairs 
cosmo surface dataset skl 
Returns a dataset structure based on surface mesh data 
cosmo surficial neighborhood skl 
neighborhood definition for surfacebased searchlight 
cosmo synthetic dataset skl 
generate synthetic dataset 
cosmo tail skl 
find values in left or right tail of a vector or string 
cosmo target dsm corr measure skl 
measure correlation with target dissimilarity matrix 
cosmo type skl 
print or return ASCII contents of a file 
cosmo unflatten skl 
unflattens a dataset from 2 to (1+K) dimensions. 
cosmo vol coordinates skl 
convert to and from spatial (x,y,z) coordinates 
cosmo vol grid convert skl 
convert between volumetric (fmri) and gridbased (meeg source) dataset 
cosmo warning skl 
show a warning message; by default just once for each message 
cosmo winner indices skl 
Given multiple predictions, get indices that were predicted most often. 
cosmo wizard set config skl 
GUIbased ‘wizard’ to set CoSMoMVPA configuration file 
cosmo wtf skl 
return system, toolbox and externals information 