pycluster | Python Clustering - Including PAM and Clara algorithms
kandi X-RAY | pycluster Summary
kandi X-RAY | pycluster Summary
Including PAM and Clara algorithms. Added parallel PAM implementation. Added performance comparison logging (set initMedoidsFixed = True). python pam_parallel.py euroTry.txt 4 4 > euroTry_parallel_4_4.log. python pam.py euroTry.txt 4 > euroTry_4.log.
Support
Quality
Security
License
Reuse
Top functions reviewed by kandi - BETA
- Run the kmedoids algorithm
- Calculate the total cost for a given cost function
- Compute the Pearson distance between two vectors
- Compute the euclidean distance between two vectors
- Return the manhattan distance between two vectors
- Calculates the kmedoids algorithm for a given cluster
- Imports data from a file
pycluster Key Features
pycluster Examples and Code Snippets
Community Discussions
Trending Discussions on pycluster
QUESTION
I'm trying to cluster and visualise some data with xmeans from the pyclustering lib. I copied the code directly from the example in the documentation,
...ANSWER
Answered 2020-Nov-22 at 18:01In line with the error that you got:
Only objects with size dimension 1 (1D plot), 2 (2D plot) or 3 (3D plot) can be displayed. For multi-dimensional data use 'cluster_visualizer_multidim'.
You have to use cluster_visualizer_multidim
as it was mentioned. There is a documentation (pyclustering 0.10.1) with an example: https://pyclustering.github.io/docs/0.10.1/html/dc/d6b/classpyclustering_1_1cluster_1_1cluster__visualizer__multidim.html
For example, if you have a data (D > 3
) and you want to display (x0, x1)
and (x0, x2)
then you can display it in the following way:
QUESTION
I am trying CLARANS clustering with pyclustering module, but for all the data I've tried clarans(data, number_clusters, numlocal, maxneighbor) all the methods returns [] (an empty list) no matter what the parameter values are. I made a random data to test the method, but the answer is the same, the only data that works is the iris data datasets.load_iris() form sklearn module. Am I doing something wrong?
This is the testing data:
...ANSWER
Answered 2020-Jul-05 at 10:52You forgot to peform the processing using process()
function before printing out the clusters.
This statement
QUESTION
I like try the k-mediod clustering method (PAM) over the dataset https://archive.ics.uci.edu/ml/datasets/seeds
I don't know whether there exists other libraries other than pyclustering for this purpose. Anyway, how can I compute Silhouette coefficient for the clustering using this library? It don't provide such a method as an k-means with sklearn.
...ANSWER
Answered 2018-Jul-27 at 11:36From the documentation, you can use sklearn.metrics.silhouette_score(X, labels, metric=’euclidean’, sample_size=None, random_state=None, **kwds)
. This function returns the mean Silhouette Coefficient over all samples. To obtain the values for each sample, use silhouette_samples
. I also recommend to see this vignette. There is a nice example in there for you to test too.
QUESTION
I want to cluster some data in R with library from Python (pyclustering
).
I am using reticulate
package to do this:
ANSWER
Answered 2018-May-18 at 10:09I think the issue is with use of pyclustering
library and not with reticulate
or R
. As indicated in the README example, you need to run process()
function on object:
QUESTION
On wikipedia, there is a description of how to initialize the kmeans cluster locations according to a random method.
In pyclustering, a python clustering library, the various clusters are implemented with a high performance c-core. This core is faster than numpy/sklearn, so I want to avoid implementing anything in sklearn/numpy (or else I might lose the speedy feel of the code right now).
However, the kmeans class requires an initial cluster location list to get going. What is the intended method of initializing these cluster locations in pyclustering?
...ANSWER
Answered 2017-Aug-16 at 08:20There is automatically generated pyclustering documentation where API of kmeans algorithm is described.
For example, you have a 2D-data where two clusters should extracted, then you need to specify initial centers (pyclustering doesn't generate initial centers they should be provided by user):
Community Discussions, Code Snippets contain sources that include Stack Exchange Network
Vulnerabilities
No vulnerabilities reported
Install pycluster
You can use pycluster like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.
Support
Reuse Trending Solutions
Find, review, and download reusable Libraries, Code Snippets, Cloud APIs from over 650 million Knowledge Items
Find more librariesStay Updated
Subscribe to our newsletter for trending solutions and developer bootcamps
Share this Page