Questions tagged [cluster-analysis]
Questions on the cluster analysis functions of Mathematica, including the Hierarchical Clustering Package.
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Determining the Method option that FindClusters uses with AbsoluteOptions
I am trying to determine which method mathematica chooses when using FindClusters. The documentation says that it chooses the best one for the data. I have tried to use ...
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49 views
K-medians clustering computation
Is there a built-in function for data clustering using k-medians algorithm? I found out about the ClusterDissimilarityFunction of the ...
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1answer
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map cellular automaton to planar surface
Im exploring possibility to apply a CA to a portion of a region in an image.
Think that I can process an image to identify a region, as an example, a green area.
I would like to confine that area, ...
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Clustering irregular (x,y) coordinates
I have coordinates of bubbles rising in a fluid (with some horizontal velocity). I need to cluster them by source.
data = data in .nb format
Graphic version of the data containing multiple sources
...
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81 views
Programming a DBSCAN in Mathematica
FindClusters has a built-in Method called "DBSCAN". You can find it on this page:
https://...
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1answer
134 views
Adjacency Matrix to Clusters of Equal Sizes
I have a system with 72 nodes.
I have a binary adjacency matrix $S$ of size $72\times 72$. If $S_{i,j}=1$, then node $i$ is adjacent to node $j$. So, we also have $S_{i,j}=S{j,i}$. So, $S$ is a ...
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1answer
92 views
How to find clusters with same cluster sizes?
I have a set of 71 data points. Each data point is represented by its latitude and longitude. I want to divide them into 12 clusters. The first 11 cluster will have exactly 6 points each and 12th ...
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2answers
127 views
How to form multiple clusters of given size from a set of points?
Let us consider a 2 dimensional space. There are 100 points in it. So, each point has its $x$ and $y$ coordinates. I want to form 10 clusters. Each cluster has 10 points.
How can I form such ...
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1answer
68 views
Using Density Histogram on FindCluster
I have some data which I want to put in a DensityHistogram after i have clustered
it. The different clusters should have different colors and based on how many are ...
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1answer
120 views
How do we cluster separate curves in a set of data?
Below, I have included some data. (It is long, but I don't like to host data elsewhere and provide links that might some day be broken.)
Plotting this set of data,...
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1answer
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ClusteringComponent and FindClusters are returning the wrong number of clusters and are inconsistent
I am trying to find the optimum number of clusters in a correlation matrix.
To do this I run a clustering algorithm that loops through 3 variables ( number of clusters, ...
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clustering data on a spectrum with a custom distance function
I have recently been faced with a problem on spectral analysis which may find a solution with data clustering techniques. I have an energy spectrum with around 200 energy levels: many of them ...
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How to ask FindClusters to return the loss function value in the output?
I have some data points pts as below:-
pts = BlockRandom[SeedRandom[123]; RandomReal[1, {100, 2}]];
Now I want to separate ...
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What is the default method of FindClusters?
I used Method -> Automatic on FindClusters and obtain a cluster autoCts as below:-
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58 views
How to make the clustering result of version 11.2 and 11.3 same?
I was doing clustering analysis in version 11.2, with codes like below, and then got 12 clusters as the output:
...
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2answers
64 views
Number of contiguous ones of an element in a 2d binary array
I have a 2d binary array of 0s and 1s. I select an element and would like to know how many 1s are in the contiguous cluster that includes the selected point. If the selected element is 0, the answer ...
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2answers
213 views
How to Wrap the Points of a 3D Clustering Plot?
I am doing clustering and have a plot as below:-
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Why does FindClusters put closer points into different clusters?
I am trying to do clustering and then obtained a plot as below:-
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How to know the layout about these points
I have such points
pts=Uncompress[FromCharacterCode[
Flatten[ImageData[Import["http://i.stack.imgur.com/hkAK8.png"],"Byte"]]]];
...
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2answers
91 views
How to cluster the elements of a list based on connectivity?
Consider a list (coordpairs) of coordinate pairs as
...
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1answer
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Finding the size of connected clusters with specific patterns in an array
I have a $w \times h$ array with either $-1$ or $+1$.
I wish to monitor the size of the largest connected clusters with specific patterns that occur during a Monte Carlo simulation, i.e.,
a ...
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0answers
48 views
How does DominantColors work?
I'm trying to understand the algorithms behind DominantColors[]. Unfortunately Trace[] and ...
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1answer
53 views
How to specify radius for “MeanShift” Method of FindClusters
I would like to specify the radius used for the "MeanShift" Method of FindClusters. Where ...
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1answer
100 views
How to segment an image based on MeanEuclideanDistance?
Consider an image (img) as
Now I have partitioned the image using the following command
parts = ImagePartition[img, 32];
...
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0answers
49 views
What method does FindGraphCommunities use with Method -> “Centrality”?
Cross-posted to W Community
I would like to know what method FindGraphCommunities uses with the option Method -> "Centrality"...
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“Optimize” find clustering by local optimization
There is a method of clustering in Mathematica named "Optimize" which find clustering by local optimization. Here is the ref http://reference.wolfram.com/language/tutorial/PartitioningDataIntoClusters....
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ClusterClassify and FeatureTypes
I have a dataset that I want to classify in clusters. All values are numbers.
For some variables, the values can represent a real measure (a distance, a weight...) but for some other variables, the ...
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1answer
94 views
How to visualize several groups of points?
I have generated a dataset that clustered some of data points into three groups, the output was three -column data like this:
there are some points with X,Y coordinates and I already labeled each of ...
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How can I rotate labels in a Dendrogram when using pre-clustered data?
I have some pre-clustered data that I want to visualize with Dendrogram. I am using Dendrogram purely for visualization in this ...
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2answers
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Impact of Linkage and DistanceFunction on Agglomerate clustering
I'm using Agglomerate function to find clusters of my experimental points. I have about 20 points with 10 parameters each. It seems it works fine, but there are plenty of Linkage and DistanceFunction ...
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FindCluster only finds cluster “with a little help”
Currently I made some slides to illustrate clustering. As an example I made a point set of two clusters:
...
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65 views
How can I improve effect of Clustering of MNIST?
Limit us with Clustering technology, like FindClusters, ClusteringComponents,ClusterClassify,...
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2answers
119 views
How to detect the frequency of gene pairings in lists of genetic profiles
We have a list of >1000 gene profiles each consisting typically of 4 genes. Many profiles share pairs of identical genes. Can we derive clusters of profiles which share pairs or even trios of genes? ...
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4answers
562 views
How to split data into clusters based on fitting to function
I have data which looks somewhat like this:
On the picture, you can see that the data can be described by 2 linear functions - if you manage to split it into 2 groups, each can easily be fitted with <...
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0answers
59 views
FindCluster gives same grouping each time in Mathematica 9 and different in 11.1
This is my dataset:
...
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2answers
589 views
Plot density of discrete data
I have some discrete data in the form {{x1,y1},{x2,y2},...} and when I produce a ListLogLogPlot they look like this:
I would ...
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2answers
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Inexplicable results from ClusteringComponents Agglomerate in version 11.1
I have data like this:
data = {5, 12, 18, 19, 20, 23, 24, 26};
On Mathematica 11.1, clustering produces a variable final choice of clusters. For example:
...
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1answer
198 views
How to rapidly find the nearest pairs of points in different clusters
Background
For speed up this question or this question,I have such need.
Current try:
Suppose I have $3$ clusters of points:
...
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1answer
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Import, DirectAgglomerate, DendogramPlot- why must I execute every command seperately? [closed]
I have a big distance matrix in a file and I want to do clustering and plot dendgoram. I've tried:
...
8
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2answers
235 views
FindClusters doesn't accept custom DistanceFunction
Bug introduced in 11.0 and persisting through 11.1.0
I have a problem with using custom DistanceFunction in FindClusters. To make the issue as simple as possible, consider clustering odd & even ...
3
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1answer
54 views
Most Computationally Efficient Way To Rejoin Related List Elements?
I am working with a large list of elements, each of which are assigned five values. The first 3 are coordinates, while the remainder are other important properties. I need to cluster these elements ...
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1answer
166 views
FindClusters versus ClusteringComponents
[Cross-posted on the Wolfram Community.]
I just found out that there's a difference in the number clusters retrieved when using FindClusters and ...
1
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1answer
64 views
Average Clusters of x,y coordinates [closed]
This seems like an easy question but I am a bit rusty with Mathematica. I have a list of x,y coordinates and I would like to average the first number of each group. E.g. The mean of 10,9,and 9. And ...
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Clustering with a certain number of members
Is it possible to find exact number of clusters with exact numbers of members in each cluster?
Something like this:
...
4
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1answer
250 views
Dendrogram: control label position and formatting
How can I control the label position and formatting using Dendrogram? I am looking for a way which is also easy to use when passing a clustering tree as input (...
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“DistanceCombiner” option of Dendrogram – what is it?
Dendrogram has the following non-graphics options:
...
