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Questions tagged [jaccard-similarity]

Jaccard similarity (or jaccard coefficient) is a similarity function for computing the similarity between two sets

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Set Similarity Measure that accounts for size

Suppose I have two sets, A and B where 10|A| = |B| and A is a subset of B. For the case where |A| = 1 the Jaccard similarity of the sets will be 0.1. For the case where |A| = 100 the Jaccard ...
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Jaccard Similarity with Binary Data

I have 5400 rows of data and 3211 columns of attributes. The first 4 columns are ID/Name/ParentID/ObjectType - the rest of the 3207 columns are the attributes that are to be used for similarity ...
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1answer
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Similarity between n >> 2 binary vectors

I have $n$ binary vectors $x_i, ..., x_n$ of length $d$. I wish to compute a similarity measure between all $n$ of them. My initial thought was to use the Jaccard Index, since each binary element $x_{...
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Jaccard Index for Binary Data in R using dist function

I have a presence/absence table of 0s and 1s and I would like to cluster this data. I want to create a pairwise matrix using R's dist function which has a binary ...
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jaccard distance if one samples is a subset

I have a very basic question but I cannot find an answer (especially for a clustering situation). I am trying to do hierarchical clustering of samples using jaccard distances. One sample contains ...
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45 views

Addressing “Unbalanced Features” or Feature Taxonomy for Nearest Neighbor / Similarity Calculations

The main question is how to address an imbalance in representation of feature "sets" when calculating similarity. I'll motivate with an example scenario: Suppose we have objects described by a binary ...
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Jaccard Similarity in R Input Prep [closed]

Could I get assistance generating dynamic comparison vectors to use in the Jaccard function in R? For instance, if I have two sets: "a" "b" "c" and "b" "c" "f" the union vector would be a,b,c,f ...
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Downsampling features: how to select the most optimal features to recapitulate clustering [closed]

I've performed single cell analysis in which each gene represents a feature to cluster upon; there are about 20,000 genes expressed across all the cells in the dataset. I use the top 1500 or so ...
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218 views

Jaccard distance for sets of different sizes

Is the Jaccard distance still a metric if applied to sets of different sizes? Or does it require the input sets are of the same length?
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Jaccard Similarity for matrices

I want to use the jaccard similarity to measure the quality of my binary segmentation. I found a function in the library sklearn.metrics called jaccard_similarity_score and I found in another forum ...
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Unique Jaccardian Distance?

Hi I have a dataset that could be simulated using: ...
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Can I use Manhattan distance on binary data for hierarchical clustering?

I understand that classically Jaccard and Hamming work best with binary data, but is there anything specifically wrong with using a Manhattan distance instead with the complete linkage function?
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Estimate Jaccard similarity based on a sample

The Jaccard similarity of two sets, $A$ and $B$, is defined as: $Jaccard(A,B)=\frac{A\cap{B}}{A\cup{B}}$. Say that I only have a sample of $P\%$ of each of the sets: $A'$ and $B'$. What would be a ...
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Measure similar to Jaccard index but comparing more than two groups at a time

I am interested in looking at the amount of sharing between several samples (each represented as a vector of character strings), and to do pairwise comparisions, I have been using Jaccard indices. Is ...
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Calculating Jaccard similarity in R: all duo combinations for multiple groups and creating a matrix or cluster plotting with the index [closed]

I have been trying to compute Jaccard similarity index for all possible duo combinations for 7 communities and to create a matrix, or preferably Cluster plotting with the similarity index. There are ...
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283 views

How do I calculate the Jaccard distance for normal distributions?

I'm trying to replicate the results in this paper. I'm stuck at this part: specifically, calculate Jaccard intersection of pdata1 & pdata2 Is there some neat ...
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1answer
958 views

What is the significance of the Jaccard similarity score?

I understand how to calculate the jaccard similarity , but never quite understood the logic behind why are we calculating it. How does it show the similarity between two sets? What relation exactly ...
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49 views

Correlation of continuous-time series

I have two continuous time series of discrete events. The data from them are timestamps of occurences, e.g. ...
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1answer
35 views

Measuring simmilarity of observations (non numeric)

I have a dataset of format : day,measurement1,measurement2 1,a,b 1,a,c 1,f,s 2,a,b 2,a,c 2,f,g 3,a,d 3,a,q 3,f,s In this example day1 is more similar with day2 ...
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Calculating Similarity between two multiset

I need to find similarity between two multiset. For example, $$A = \{a, a, b, c, d\}$$ $$B = \{a, b, b, d\}$$ I know that I can use Jaccard Index but it gives same weight for each element. As ...
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Dummy data clustering: OK to apply Euclidian distance hierarchical clustering on Jaccard similarity matrix?

I created dummy variables (binary data) from categorical variables where I want to partition N subjects into multiple classes by some clustering method. I created a Jaccard similarity index matrix for ...
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Similarity between bar plots (counts of categories)?

What are the best ways to compare (calculate similarity) between two bar plots? For example: ...
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3answers
2k views

Similarity measures for more than 2 variables

If I have two binary variables, I can determine the similarity of these variables quite easily with different similarity measures, e.g. with the Jaccard similarity measure: $J = \frac{M_{11}}{M_{01} +...
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1answer
368 views

Interpretation of Jaccard similarity for binary networks

Given two undirected networks with the same amount of nodes defined by $A_{ij}^1$ and $A_{ij}^2$, we take the unique unordered pairs $(i, j)$. After sorting them, we then have two binary vectors $\vec{...
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How to statistically validate that one clustering technique is more effective than other on Binary data

Problem statement - Idea is to cluster students based on their assessment pattern and score. Data = I have a data set that contains Binary data of students answers(Correct/incorrect) which i have ...
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1answer
45 views

How to form clusters when features are sets of string objects

I am building a movie recommender. But unlike common recommender from movielens data, features of my movies are sets like actor list, genre list, list of producers and writers etc. I know I can use ...
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2answers
226 views

Detecting misclassified data points using distance matrix

I have a data set of around 65,000 items from a public database that have each been assigned to one of around 1,800 classes, but unfortunately I am aware that quite a few are misclassified. My goals ...
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Jaccard similarity coefficient vs. Point-wise mutual information coefficient

Can you explain the difference between the Jaccard similarity coefficient and the pointwise mutual information (PMI) measure? It would be great if you could add a few examples.
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Accuracy vs Jaccard for multiclass problem

TL;DR For a multiclass problem, is Jaccard score the same as accuracy? Update March 29, 2019 The wrong implementation in scikit-learn is now fixed with pull request #13151. Hooray! P.S. The lesson ...
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138 views

Threshold value for nodes similarity

I am working on an algorithm for community detection on complex systems, where those systems are modeled as graphs. To form community i need to find similarity between nodes. I am using Jaccard ...
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333 views

Jaccard coefficient (0011 and 1100 most similar?)

I try to compare different binary objects, lets say: ...
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1answer
507 views

How to compare a Ranked List?

I have 50 products. For each product, I identify 3 related products (1 top related, 2 (partially related, least related)) using similarity measures. I want to compare the ranked list generated by my ...
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2answers
553 views

Jaccard similarity of sets with approximate element matching

Consider two sets like this: A = {'hello', 'world'} and B = {'Hello', 'helo', 'goodbye'}. I want to measure the similarity between these two sets. There are two levels to this problem: Comparing ...
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NMDS from Jaccard and Bray-Curtis identical. Is that a bad thing?

The dataset is ecological (species abundance), where I am calculating distances between 51 sampling sites, based on abundances of 3200 species. The species abundance values go up to 2700, and the rest ...
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Jaccard distance vs Levenshtein distance for fuzzy matching

My data is similar to the following data, but far bigger and more complex. Apple Banana Those fruits Tomato Cocumber These vegetables I would like to get the ...
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1answer
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What are the difference between Dice, Jaccard, and overlap coefficients? [closed]

I come across three different statistical measures to compare two sets, in particular to segmentation on images (e.g., comparing the similarity between the ground truth and the segmented result). ...
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I want to find similarity for 20 organisms on 25 parameters? How to do this ? Any software is available for this? [closed]

How to find similarity for 20 organisms on 25 parameters? How to do this ? Any software available for this?
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Find similarity score between multiple items based on tags assigned to them

I am working for a client who is in e-commerce. They have thousands of offerings and each has its own set of tags. Now, they want to find similar designs dynamically based on the item selected by the ...
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Statistical Interpretation of Average Pairwise Similarity

I have assembled binary vectors (0/1 for all elements and equal weight and arranged in time order) that have been separated into different cohorts where a unique event of interest occurs. I have ...
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105 views

Similarity measures and document length

I have an application where I need to measure the similarity between the (TF-IDF?) representation of two documents: $\mathbf{a}$ and $\mathbf{b}$ while still taking the document length into account. ...
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Numerical Similarity Measures for Dirty Data

I need to compare two datasets to see if they are "similar" in terms of numerical similarity between given columns. The problem is, however, that I do not know the characteristics of the 2nd dataset. ...
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2answers
2k views

Significance Test for Jaccard Distance

I am looking for a significance test for the Jaccard Distance (JD). As an example, I have two datasets as follows: Baseline: $\left| A\bigcap B \right|=57;\ \left| A\bigcup B \right|=275\quad \...
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1answer
328 views

Is the Jaccard Index a function of the number of elements in a list?

I am trying to understand a research result. Imagine 10 different psychological questionnaires 1,2,3,...10 of different length (i.e. number of questions) that are all supposedly measuring the same ...
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Approach to find similarity between two different types of matrices

I'm using the movielens dataset to give recommendations to a user based on genre of the movies. I have two matrices, one contains the genre the user likes. We are considering user3 for now I also ...
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88 views

How to soften or mitigate vector similarity measure?

I would like to evaluate a similarity between two objects X and Y by comparing a neighbourhood in which they're located. I construct two sets of nine concentric and equidistant circles with centers ...
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1answer
331 views

Selecting the number of hashes for minhash? Working with extremely sparse data and want more collisions

I'm attempting to use minhash to generate clusters and similarities, and I am primarily using ideas from these resources. http://www2007.org/papers/paper570.pdf https://chrisjmccormick.wordpress.com/...
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916 views

Similarity between sets with different size

is there a distance measure like jaccard for sets with different sizes? For example A=['a','b','c'] and B=['a','d'] I would like to include the total intersection as well as the order. The ...
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1answer
853 views

confusion matrix and Jaccard index computation in O(n) for cluster comparison

My problem: I have two clustering (or partitions) of a set of numbers $\{1,...,n\}$, each with $k$ cluster (or subsets), that i have to compare and, to do that, i'd like to try some different indexes ...
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1answer
816 views

Apriori versus Jaccard Coeff for recommender-system

I developed a market basket program for a retailer. I used the pymining library association rules function. I assume this uses the Apriori algorithm. I got 340,000 rules for an input of 17,000 ...
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Jaccard similarity in R

I want to compare 2 vectors of length 43; they have values of 0 (not present) and 1 (present). I will refer to $M_{1,1}$ as situations in which both 1 are present, and $M_{1,0}$ and $M_{0,1}$ to ...