Questions tagged [multidimensional-scaling]

Technique that renders observed or computed (dis)similarities among objects into distances in a low-dimensional space (usually Euclidean). It thus constructs dimensions for the data; the objects can be plotted and conceptualized in those dimensions

The goal of multidimensional scaling (MDS) is, given pairwise dissimilarities (i.e. a matrix of distances $D = (d_{ij})$), find coordinates $x_i, x_j$ such that:

$$d_{ij} \approx ||x_i - x_j||_2$$

That is, such that distances are preserved.

Distance or dissimilarity is defined for any pair of objects. A distance is a metric in the mathematical sense and satisfies certain properties.

225 questions
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What is the role of MDS in modern statistics?

I recently came across multidimensional scaling. I am trying to understand this tool better and its role in modern statistics. So here are a few guiding questions: Which questions does it answer? Which researchers are often interested in using…
Tal Galili
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In multidimensional scaling, how can one determine dimensionality of a solution given a stress value?

In multidimensional scaling, how can one determine dimensionality of a solution given a stress value? From what I understand, stress value is inversely related to the number of dimensions of a MDS solution, and that higher stress value indicates…
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Guttman's smallest space analysis

I am trying to replicate an analysis as conducted by Raven, et al. (1998). A scale is analyzed with Guttman's smallest space analysis. First of all I wasn't able to find a suitable procedure in R and it appeared to me as if SPSS might be the…
Roman
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Issue of multiple scaling method

I plan to use multiple scaling in R and start with a toy example. There are two matrices. The first contains 10 observations and the second one contains two replicated rows. It appears that the repeated rows are projected to different…
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Detect variable leading to grouping in Non-Metric Multidimensional Scaling (NMDS)

I'm performing an NMDS analysis on a Jaccard distance matrix of 347 variables across 341 subjects. I'm using mMDS from the Vegan package in R, everything seems to run fine, I get convergence and a decent stress value. When I plot the results I can…
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When visualizing multidimensional scaling, is it weird if Dimension 1 is the y axis?

Since Dimension 1 is longer than the Dimension 2, I want to make the plot vertically long rather than horizontally long so that it's easier to include it in my thesis. But is it acceptable to make Dimension 1 the y axis and not the x axis?
Ian
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Computing and comparing semantic networks generated by grouped individuals

I have 2 groups, each containing 20 individuals. For each individual I have a dissimilarity matrix of a number of judged items. I'd like to evaluate whether there is an overall difference between the groups in the semantic networks underlying their…
Mike Lawrence
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How to create a line of best fit and identification of the variables on and MDS plot in R?

I am trying to run non-metric MDS on a dataset that has 28 rows (object = burials) and 27 columns (variables). I have coded it as binomial because my data is both qualitative and quantitative. I am able to get an MDS plot using the code…
Kgreen
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Can the distances of two MDS plots be quantitatively compared?

Let's say that I have one population that can be divided by a 2-level factor. I run MDS twice (using prcomp() {stats} in R), using the 2-level factor to separate my subjects. If I reduce to two dimensions, I now have two plots. Let's say that on…
tluh
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What's right/wrong with using multi-dimensional scaling to analyze voting patterns of for members of an 11-member city council?

I'm trying to analyze voting patterns of an 11-member city council over a period of five years. Description of data file: each row (vector) is labeled as a councilmember; each column records participation of a councilmember in a particular vote (1…
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What's the difference between metric multidimensional scaling and non-metric dimensional scaling? And how to deal with categorical variables?

So, I need to do some exploratory data analysis and I picked MDS to figure up if there were trends in the data. The structure of my data looks like this: $ Generation: int 2 2 2 2 2 2 2 2 2 2 ... $ Panel : chr "A" "A" "A" "A" ... $ Line …
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MDS: Are there measures of stress that are not affected by the number of objects?

This question flows naturally out of a previous question, in which it was explained that Stress-1 is somewhat impacted by the number of objects. You can assume that the number of objects in the smaller set will always be at least 20, and probably…
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Analysis of microbial community data collected from iPad swabs

We have taken a number of swabs (~200) from iPads used in our clinic, and after the first half we've introduced an intervention to disinfect all iPads after every use (in addition to the standard hygiene measures). Besides doing culture, we've…
Pascal
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