dbscan | Density Based Clustering of Applications with Noise | Machine Learning library

by mhahsler C++ Version: dbscan_1.1.9 License: GPL-3.0

X-Ray Key Features Code Snippets Community Discussions(10)Vulnerabilities Install Support

kandi X-RAY | dbscan Summary

dbscan is a C++ library typically used in Artificial Intelligence, Machine Learning applications. dbscan has no bugs, it has no vulnerabilities, it has a Strong Copyleft License and it has low support. You can download it from GitHub.

This R package provides a fast C++ (re)implementation of several density-based algorithms with a focus on the DBSCAN family for clustering spatial data. The package includes:. The implementations use the kd-tree data structure (from library ANN) for faster k-nearest neighbor search, and are typically faster than the native R implementations (e.g., dbscan in package fpc), or the implementations in WEKA, ELKI and Python's scikit-learn.

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dbscan has a low active ecosystem.

It has 184 star(s) with 44 fork(s). There are 11 watchers for this library.

It had no major release in the last 12 months.

There are 13 open issues and 23 have been closed. On average issues are closed in 56 days. There are 2 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of dbscan is dbscan_1.1.9

Quality

dbscan has 0 bugs and 0 code smells.

Security

dbscan has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

dbscan code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

dbscan is licensed under the GPL-3.0 License. This license is Strong Copyleft.

Strong Copyleft licenses enforce sharing, and you can use them when creating open source projects.

Reuse

dbscan releases are available to install and integrate.

Installation instructions, examples and code snippets are available.

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dbscan Key Features

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dbscan Examples and Code Snippets

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Community Discussions

Trending Discussions on dbscan

How to use Time series with the Sklearn OPTICS Algorithm?

Calculating the cluster size in t-SNE

how to get the confidence of clustering created by dbscan in python

Replace specific column values with pd.NA

Error in axis(side = side, at = at, labels = labels, ...) : invalid value specified for graphical parameter "pch"

Extra column from nowhere in dataframe when trying to extract mode from series

Min distance between Point Cloud (XYZ) Points in Python

GCP logging console doesn't display some GKE log messages

Clustering on Python and Bokeh; select widget which allows user to change clustering algorithm

Clustering arbitrary objects with custom distance function in Python

QUESTION

How to use Time series with the Sklearn OPTICS Algorithm?

Asked 2022-Apr-02 at 14:40

I'm trying to cluster time series. I also want to use Sklearn OPTICS. In the documentation it says that the input vector X should have dimensions (n_samples,n_features). My array is on the form (n_samples, n_time_stamps, n_features). Example in code further down.

My question is how I can use the Fit-function from OPTICS with a time series. I know that people have used OPTICS and DBSCAN with time series. I just can't figure out how they have implemented it. Any help will be much appreciated.

...

ANSWER

Answered 2022-Apr-02 at 14:40

Given the following np.array as an input:

Source https://stackoverflow.com/questions/70955592

QUESTION

Calculating the cluster size in t-SNE

Asked 2022-Jan-05 at 09:58

I've been working on t-SNE of my data using DBSCAN. I then assign the obtained values to the original dataframe and then plot it with seaborn scatterplot. This is the code:

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ANSWER

Answered 2022-Jan-05 at 09:58

If it is the cluster size, you just need to tabulate the results of your DBSCAN, for example in this dataset:

Source https://stackoverflow.com/questions/70469209

QUESTION

how to get the confidence of clustering created by dbscan in python

Asked 2021-Nov-24 at 16:20

I used the sklearn.dbscan in python and the result only gives the labels of each cluster, but I also want to calculate the confidence of clustering, or just the cluster's average distance of each other.

Do you guys have any idea?

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ANSWER

Answered 2021-Nov-24 at 16:20

I don't think this functionality is not supported by Scikit. Cluster confidence is not a thing, as DBSCAN does not use cluster probabilities. However, calculating cluster distances is relatively straightforward though.

Source https://stackoverflow.com/questions/70099162

QUESTION

Replace specific column values with pd.NA

Asked 2021-Oct-25 at 13:19

I am working on a data set that contains longitude and latitude values.

I converted those values to clusters using DBSCAN.

Then I plotted the clusters just as a sanity check.

I get this:

The point at (0, 0) is obviously an issue.

So I ran this code to capture which row(s) are a problem.

...

ANSWER

Answered 2021-Oct-25 at 13:13

Try this one out:

Source https://stackoverflow.com/questions/69708214

QUESTION

Error in axis(side = side, at = at, labels = labels, ...) : invalid value specified for graphical parameter "pch"

Asked 2021-Sep-18 at 17:36

I have applied DBSCAN algorithm on built-in dataset iris in R. But I am getting error when tried to visualise the output using the plot( ).

Following is my code.

...

ANSWER

Answered 2021-Sep-18 at 17:36

I have a suggestion below, but first I see two issues:

You're loading two packages, fpc and dbscan, both of which have different functions named dbscan(). This could create tricky bugs later (e.g. if you change the order in which you load the packages, different functions will be run).
It's not clear what you're trying to plot, either what the x- or y-axes should be or the type of plot. The function plot() generally takes a vector of values for the x-axis and another for the y-axis (although not always, consult ?plot), but here you're passing it a data.frame and a dbscan object, and it doesn't know how to handle it.

Here's one way of approaching it, using ggplot() to make a scatterplot, and dplyr for some convenience functions:

Source https://stackoverflow.com/questions/69236003

QUESTION

Extra column from nowhere in dataframe when trying to extract mode from series

Asked 2021-Aug-30 at 04:14

finals_preds= pd.concat([clf_preds,clf_pred_probs,ISFOR_clus_preds,SVM_clus_preds,KMEANS_clus_preds,LOCOUT_clus_preds, DBSC_clus_preds],axis=1)
finals_preds.columns=['clf_class','clf_score', 'ISOFOR','SVM-1C','KMEANS','LOCOUT','DBSCAN']
finals_preds

...

ANSWER

Answered 2021-Aug-29 at 22:39

mode returns the values that appears most often. You have a binary table so you can have this three cases below:

Source https://stackoverflow.com/questions/68977256

QUESTION

Min distance between Point Cloud (XYZ) Points in Python

Asked 2021-Aug-26 at 21:06

I am trying to run Density-Based Spatial Clustering (DBSCAN) on a Point Cloud dataset which is a series of points with x,y,z coordinates. One of the parameters in min distance. How do I find the minimal distance between a point and another in space in Python? Many thanks!

Data Sample:

...

ANSWER

Answered 2021-Aug-26 at 21:06

First you can write a function that computes the euclidian distance between two points represented as numpy arrays :

Source https://stackoverflow.com/questions/68938033

QUESTION

GCP logging console doesn't display some GKE log messages

Asked 2021-Aug-25 at 10:30

I have K8S cluster in GCP (version is 1.20.8-gke.900 from the regular update channel). All cluster pods write logs in STDOUT or STDERR from Docker containers.

I found that some log messages never appear in GCP Logging console.

For example:

...

ANSWER

Answered 2021-Aug-25 at 10:30

I have tried reproducing, and could get the JSON snippet to log regularly once I removed the “time” field(not “timestamp”). I suspect the format of value in the “time” field("time": 3282419) mismatch is causing the logs from not getting generated on Cloud logging. Refer Time-related fields for information.

Source https://stackoverflow.com/questions/68830604

QUESTION

Clustering on Python and Bokeh; select widget which allows user to change clustering algorithm

Asked 2021-Aug-11 at 12:48

I am trying to build a feature in a Bokeh dashboard which allows the user to cluster data. I am using the following example as a template, here is the link:- Clustering in Bokeh example

Here is the code from this example:-

...

ANSWER

Answered 2021-Aug-11 at 12:48

I don't know sklearn but comparing both your examples I can see the following:

the Select is a Bokeh model which has value attribute of type string. So select.value is a string
the dbscan is an algorithm function

So when you do algorithm = dbscan you assign an algorithm function to your algorithm variable and when you do algorithm = select.value in your second example you assign just a string to it so it won't work because string doesn't have the fit() function. You should do something like this:

Source https://stackoverflow.com/questions/68726083

QUESTION

Clustering arbitrary objects with custom distance function in Python

Asked 2021-May-11 at 20:33

I have a list of Python objects that I want to cluster into an unknown number of groups. The objects can not simply be compared by any distance function proposed by scikit-learn, but rather by a custom defined one. I'm using DBSCAN from the scikit-learn library, which when run on my data raises a TypeError.

Here's what the faulty code looks like. The objects I want to cluster are "Patch" objects, obtained from scanning a 3d mesh :

...

ANSWER

Answered 2021-May-11 at 20:33

Short answer: No to both parts.

"Adding an API for user-defined distance functions in clustering" has been an open issue since 2012. (Edit: I missed one part: DBSCAN does support passing a metric callable, but this would still have to be done with respect to a vector representation).
Any call to .fit has to successfully pass check_array.

One solution would be to implement a method that converts an object to a list/vector:

Source https://stackoverflow.com/questions/67489107

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install dbscan

Stable CRAN version: install from within R with. Current development version: Download package from AppVeyor or install from GitHub (needs devtools).

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For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

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