I’m just going to jump right into the definitions and rigor, so if you haven’t read the previous post motivating the singular value decomposition, go back and do that first. This post will be theorem, proof, algorithm, data. The data set we test on is a thousand-story CNN news data set. All of the data, code, and examples used in this post is in a github repository, as usual.

We start with the best-approximating -dimensional linear subspace.

**Definition:** Let be a set of points in . The *best approximating -dimensional linear subspace* of is the -dimensional linear subspace which minimizes the sum of the squared distances from the points in to .

Let me clarify what I mean by minimizing the sum of squared distances. First we’ll start with the simple case: we have a vector , and a candidate line (a 1-dimensional subspace) that is the span of a unit vector . The *squared distance* from to the line spanned by is the squared length of minus the squared length of the projection of onto . Here’s a picture.

I’m saying that the pink vector in the picture is the difference of the black and green vectors , and that the “distance” from to is the length of the pink vector. The reason is just the Pythagorean theorem: the vector is the hypotenuse of a right triangle whose other two sides are the projected vector and the difference vector .

Let’s throw down some notation. I’ll call the linear map that takes as input a vector and produces as output the projection of onto . In fact we have a brief formula for this when is a unit vector. If we call the usual dot product, then . That’s scaled by the inner product of and . In the picture above, since the line is the span of the vector , that means that and .

The dot-product formula is useful for us because it allows us to compute the squared length of the projection by taking a dot product . So then a formula for the distance of from the line spanned by the unit vector is

This formula is just a restatement of the Pythagorean theorem for perpendicular vectors.

In particular, the difference vector we originally called has squared length . The vector , which is perpendicular to and is also the projection of onto , it’s squared length is . And the Pythagorean theorem tells us that summing those two squared lengths gives you the squared length of the hypotenuse .

If we were trying to find the best approximating 1-dimensional subspace for a set of data points , then we’d want to minimize the sum of the squared distances for every point . Namely, we want the that solves .

With some slight algebra we can make our life easier. The short version: minimizing the sum of squared distances is the same thing as *maximizing *the sum of squared lengths of the projections. The longer version: let’s go back to a single point and the line spanned by . The Pythagorean theorem told us that

The squared length of is constant. It’s an input to the algorithm and it doesn’t change through a run of the algorithm. So we get the squared distance by subtracting from a constant number,

which means if we want to *minimize* the squared distance, we can instead *maximize* the squared projection. Maximizing the subtracted thing minimizes the whole expression.

It works the same way if you’re summing over all the data points in . In fact, we can say it much more compactly this way. If the rows of are your data points, then contains as each entry the (signed) dot products . And the squared norm of this vector, , is exactly the sum of the squared lengths of the projections of the data onto the line spanned by . The last thing is that maximizing a square is the same as maximizing its square root, so we can switch freely between saying our objective is to find the unit vector that maximizes and that which maximizes .

At this point you should be thinking,

Great, we have written down an optimization problem: . If we could solve this, we’d have the best 1-dimensional linear approximation to the data contained in the rows of . But (1) how do we solve that problem? And (2) you promised a -dimensional approximating subspace. I feel betrayed! Swindled! Bamboozled!

Here’s the fantastic thing. We can solve the 1-dimensional optimization problem efficiently (we’ll do it later in this post), and (2) is answered by the following theorem.

**The SVD Theorem:** Computing the best -dimensional subspace reduces to applications of the one-dimensional problem.

We will prove this after we introduce the terms “singular value” and “singular vector.”

## Singular values and vectors

As I just said, we can get the best -dimensional approximating linear subspace by solving the one-dimensional maximization problem times. The *singular vectors *of are defined recursively as the solutions to these sub-problems. That is, I’ll call the *first singular vector* of , and it is:

And the corresponding *first singular value, *denoted , is the maximal value of the optimization objective, i.e. . (I will use this term frequently, that is the “objective” of the optimization problem.) Informally speaking, represents how much of the data was captured by the first singular vector. Meaning, how close the vectors are to lying on the line spanned by . Larger values imply the approximation is better. In fact, if all the data points lie on a line, then is the sum of the squared norms of the rows of .

Now here is where we see the reduction from the -dimensional case to the 1-dimensional case. To find the best 2-dimensional subspace, you first find the best one-dimensional subspace (spanned by ), and then find the best 1-dimensional subspace, but *only* considering those subspaces that are the spans of unit vectors perpendicular to . The notation for “vectors perpendicular to ” is . Restating, the second singular vector is defined as

And the SVD theorem implies the subspace spanned by is the best 2-dimensional linear approximation to the data. Likewise is the second singular value. Its squared magnitude tells us how much of the data that was not “captured” by is captured by . Again, if the data lies in a 2-dimensional subspace, then the span of will be that subspace.

We can continue this process. Recursively define , the -th singular vector, to be the vector which maximizes , when is considered only among the unit vectors which are perpendicular to . The corresponding singular value is the value of the optimization problem.

As a side note, because of the way we defined the singular values as the objective values of “nested” optimization problems, the singular values are decreasing, . This is obvious: you only pick in the second optimization problem because you already picked which gave a bigger singular value, so ‘s objective can’t be bigger.

If you keep doing this, one of two things happen. Either you reach and since the domain is -dimensional there are no remaining vectors to choose from, the are an orthonormal basis of . This means that the data in contains a full-rank submatrix. The data does not lie in any smaller-dimensional subspace. This is what you’d expect from real data.

Alternatively, you could get to a stage with and when you try to solve the optimization problem you find that every perpendicular has . In this case, the data actually does lie in a -dimensional subspace, and the first-through--th singular vectors you computed span this subspace.

Let’s do a quick sanity check: how do we know that the singular vectors form a basis? Well formally they only span a basis of the *row space* of , i.e. a basis of the subspace spanned by the data contained in the rows of . But either way the point is that each spans a new dimension from the previous because we’re choosing to be orthogonal to all the previous . So the answer to our sanity check is “by construction.”

Back to the singular vectors, the discussion from the last post tells us intuitively that the data is probably never in a small subspace. You never expect the process of finding singular vectors to stop before step , and if it does you take a step back and ask if something deeper is going on. Instead, in real life you specify how much of the data you want to capture, and you keep computing singular vectors until you’ve passed the threshold. Alternatively, you specify the amount of computing resources you’d like to spend by fixing the number of singular vectors you’ll compute ahead of time, and settle for however good the -dimensional approximation is.

Before we get into any code or solve the 1-dimensional optimization problem, let’s prove the SVD theorem.

*Proof of SVD theorem.*

Recall we’re trying to prove that the first singular vectors provide a linear subspace which maximizes the squared-sum of the projections of the data onto . For this is trivial, because we defined to be the solution to that optimization problem. The case of contains all the important features of the general inductive step. Let be *any* best-approximating 2-dimensional linear subspace for the rows of . We’ll show that the subspace spanned by the two singular vectors is at least as good (and hence equally good).

Let be any orthonormal basis for and let be the quantity that we’re trying to maximize (and which maximizes by assumption). Moreover, we can pick the basis vector to be perpendicular to . To prove this we consider two cases: either is already perpendicular to in which case it’s trivial, or else isn’t perpendicular to and you can choose to be and choose to be any unit vector perpendicular to .

Now since maximizes , we have . Moreover, since is perpendicular to , the way we chose also makes . Hence the objective , as desired.

For the general case of , the inductive hypothesis tells us that the first terms of the objective for singular vectors is maximized, and we just have to pick any vector that is perpendicular to all , and the rest of the proof is just like the 2-dimensional case.

Now remember that in the last post we started with the definition of the SVD as a decomposition of a matrix ? And then we said that this is a certain kind of change of basis? Well the singular vectors together form the columns of the matrix (the rows of ), and the corresponding singular values are the diagonal entries of . When is understood we’ll abbreviate the singular value as .

To reiterate with the thoughts from last post, the process of applying is exactly recovered by the process of first projecting onto the (full-rank space of) singular vectors , scaling each coordinate of that projection according to the corresponding singular values, and then applying this thing we haven’t talked about yet.

So let’s determine what has to be. The way we picked to make diagonal gives us an immediate suggestion: use the as the columns of . Indeed, define , the images of the singular vectors under . We can swiftly show the form a basis of the image of . The reason is because if (using all of the singular vectors ), then by linearity . It is also easy to see why the are orthogonal (prove it as an exercise). Let’s further make sure the are unit vectors and redefine them as

If you put these thoughts together, you can say exactly what does to any given vector . Since the form an orthonormal basis, , and then applying gives

If you’ve been closely reading this blog in the last few months, you’ll recognize a very nice way to write the last line of the above equation. It’s an outer product. So depending on your favorite symbols, you’d write this as either or . Or, if you like expressing things as matrix factorizations, as . All three are describing the same object.

Let’s move on to some code.

## A black box example

Before we implement SVD from scratch (an urge that commands me from the depths of my soul!), let’s see a black-box example that uses existing tools. For this we’ll use the numpy library.

Recall our movie-rating matrix from the last post:

The code to compute the svd of this matrix is as simple as it gets:

from numpy.linalg import svd movieRatings = [ [2, 5, 3], [1, 2, 1], [4, 1, 1], [3, 5, 2], [5, 3, 1], [4, 5, 5], [2, 4, 2], [2, 2, 5], ] U, singularValues, V = svd(movieRatings)

Printing these values out gives

[[-0.39458526 0.23923575 -0.35445911 -0.38062172 -0.29836818 -0.49464816 -0.30703202 -0.29763321] [-0.15830232 0.03054913 -0.15299759 -0.45334816 0.31122898 0.23892035 -0.37313346 0.67223457] [-0.22155201 -0.52086121 0.39334917 -0.14974792 -0.65963979 0.00488292 -0.00783684 0.25934607] [-0.39692635 -0.08649009 -0.41052882 0.74387448 -0.10629499 0.01372565 -0.17959298 0.26333462] [-0.34630257 -0.64128825 0.07382859 -0.04494155 0.58000668 -0.25806239 0.00211823 -0.24154726] [-0.53347449 0.19168874 0.19949342 -0.03942604 0.00424495 0.68715732 -0.06957561 -0.40033035] [-0.31660464 0.06109826 -0.30599517 -0.19611823 -0.01334272 0.01446975 0.85185852 0.19463493] [-0.32840223 0.45970413 0.62354764 0.1783041 0.17631186 -0.39879476 0.06065902 0.25771578]] [ 15.09626916 4.30056855 3.40701739] [[-0.54184808 -0.67070995 -0.50650649] [-0.75152295 0.11680911 0.64928336] [ 0.37631623 -0.73246419 0.56734672]]

Now this is a bit weird, because the matrices are the wrong shape! Remember, there are only supposed to be three vectors since the input matrix has rank three. So what gives? This is a distinction that goes by the name “full” versus “reduced” SVD. The idea goes back to our original statement that is a decomposition with both orthogonal and *square* matrices. But in the derivation we did in the last section, the and were not square. The singular vectors could potentially stop before even becoming full rank.

In order to get to square matrices, what people sometimes do is take the two bases and and arbitrarily choose ways to complete them to a full orthonormal basis of their respective vector spaces. In other words, they just make the matrix square by filling it with data for no reason other than that it’s sometimes nice to have a complete basis. We don’t care about this. To be honest, I think the only place this comes in useful is in the desire to be particularly tidy in a mathematical formulation of something.

We can still work with it programmatically. By fudging around a bit with numpy’s shapes to get a diagonal matrix, we can reconstruct the input rating matrix from the factors.

Sigma = np.vstack([ np.diag(singularValues), np.zeros((5, 3)), ]) print(np.round(movieRatings - np.dot(U, np.dot(Sigma, V)), decimals=10))

And the output is, as one expects, a matrix of all zeros. Meaning that we decomposed the movie rating matrix, and built it back up from the factors.

We can actually get the SVD as we defined it (with rectangular matrices) by passing a special flag to numpy’s svd.

U, singularValues, V = svd(movieRatings, full_matrices=False) print(U) print(singularValues) print(V) Sigma = np.diag(singularValues) print(np.round(movieRatings - np.dot(U, np.dot(Sigma, V)), decimals=10))

And the result

[[-0.39458526 0.23923575 -0.35445911] [-0.15830232 0.03054913 -0.15299759] [-0.22155201 -0.52086121 0.39334917] [-0.39692635 -0.08649009 -0.41052882] [-0.34630257 -0.64128825 0.07382859] [-0.53347449 0.19168874 0.19949342] [-0.31660464 0.06109826 -0.30599517] [-0.32840223 0.45970413 0.62354764]] [ 15.09626916 4.30056855 3.40701739] [[-0.54184808 -0.67070995 -0.50650649] [-0.75152295 0.11680911 0.64928336] [ 0.37631623 -0.73246419 0.56734672]] [[-0. -0. -0.] [-0. -0. 0.] [ 0. -0. 0.] [-0. -0. -0.] [-0. -0. -0.] [-0. -0. -0.] [-0. -0. -0.] [ 0. -0. -0.]]

This makes the reconstruction less messy, since we can just multiply everything without having to add extra rows of zeros to .

What do the singular vectors and values tell us about the movie rating matrix? (Besides nothing, since it’s a contrived example) You’ll notice that the first singular vector while the other two singular values are around . This tells us that the first singular vector covers a large part of the structure of the matrix. I.e., a rank-1 matrix would be a pretty good approximation to the whole thing. As an exercise to the reader, write a program that evaluates this claim (how good is “good”?).

## The greedy optimization routine

Now we’re going to write SVD from scratch. We’ll first implement the greedy algorithm for the 1-d optimization problem, and then we’ll perform the inductive step to get a full algorithm. Then we’ll run it on the CNN data set.

The method we’ll use to solve the 1-dimensional problem isn’t necessarily industry strength (see this document for a hint of what industry strength looks like), but it is simple conceptually. It’s called the* power method*. Now that we have our decomposition of theorem, understanding how the power method works is quite easy.

Let’s work in the language of a matrix decomposition , more for practice with that language than anything else (using outer products would give us the same result with slightly different computations). Then let’s observe , wherein we’ll use the fact that is orthonormal and so is the identity matrix:

So we can completely eliminate from the discussion, and look at just . And what’s nice about this matrix is that we can compute its eigenvectors, and eigenvectors turn out to be exactly the singular vectors. The corresponding eigenvalues are the squared singular values. This should be clear from the above derivation. If you apply to any , the only parts of the product that aren’t zero are the ones involving with itself, and the scalar factors in smoothly. It’s dead simple to check.

**Theorem:** Let be a random unit vector and let . Then with high probability, is in the span of the first singular vector . If we normalize to a unit vector at each , then furthermore the limit is .

*Proof. *Start with a random unit vector , and write it in terms of the singular vectors . That means . If you recursively apply this logic, you get . In particular, the dot product of with any is .

What this means is that so long as the first singular value is sufficiently larger than the second one , and in turn all the other singular values, the part of corresponding to will be much larger than the rest. Recall that if you expand a vector in terms of an orthonormal basis, in this case expanded in the , the coefficient of on is *exactly the dot product*. So to say that converges to being in the span of is the same as saying that the ratio of these coefficients, for any . In other words, the coefficient corresponding to the first singular vector dominates all of the others. And so if we normalize, the coefficient of corresponding to tends to 1, while the rest tend to zero.

Indeed, this ratio is just and the base of this exponential is bigger than 1.

If you want to be a little more precise and find bounds on the number of iterations required to converge, you can. The worry is that your random starting vector is “too close” to one of the smaller singular vectors , so that if the ratio of is small, then the “pull” of won’t outweigh the pull of fast enough. Choosing a random unit vector allows you to ensure with high probability that this doesn’t happen. And conditioned on it not happening (or measuring “how far the event is from happening” precisely), you can compute a precise number of iterations required to converge. The last two pages of these lecture notes have all the details.

We won’t compute a precise number of iterations. Instead we’ll just compute until the angle between and is very small. Here’s the algorithm

import numpy as np from numpy.linalg import norm from random import normalvariate from math import sqrt def randomUnitVector(n): unnormalized = [normalvariate(0, 1) for _ in range(n)] theNorm = sqrt(sum(x * x for x in unnormalized)) return [x / theNorm for x in unnormalized] def svd_1d(A, epsilon=1e-10): ''' The one-dimensional SVD ''' n, m = A.shape x = randomUnitVector(m) lastV = None currentV = x B = np.dot(A.T, A) iterations = 0 while True: iterations += 1 lastV = currentV currentV = np.dot(B, lastV) currentV = currentV / norm(currentV) if abs(np.dot(currentV, lastV)) > 1 - epsilon: print("converged in {} iterations!".format(iterations)) return currentV

We start with a random unit vector , and then loop computing , renormalizing at each step. The condition for stopping is that the magnitude of the dot product between and (since they’re unit vectors, this is the cosine of the angle between them) is very close to 1.

And using it on our movie ratings example:

if __name__ == "__main__": movieRatings = np.array([ [2, 5, 3], [1, 2, 1], [4, 1, 1], [3, 5, 2], [5, 3, 1], [4, 5, 5], [2, 4, 2], [2, 2, 5], ], dtype='float64') print(svd_1d(movieRatings))

With the result

converged in 6 iterations! [-0.54184805 -0.67070993 -0.50650655]

Note that the sign of the vector may be different from numpy’s output because we start with a random vector to begin with.

The recursive step, getting from to the entire SVD, is equally straightforward. Say you start with the matrix and you compute . You can use to compute and . Then you want to ensure you’re ignoring all vectors in the span of for your next greedy optimization, and to do this you can simply subtract the rank 1 component of corresponding to . I.e., set . Then it’s easy to see that and basically all the singular vectors shift indices by 1 when going from to . Then you repeat.

If that’s not clear enough, here’s the code.

def svd(A, epsilon=1e-10): n, m = A.shape svdSoFar = [] for i in range(m): matrixFor1D = A.copy() for singularValue, u, v in svdSoFar[:i]: matrixFor1D -= singularValue * np.outer(u, v) v = svd_1d(matrixFor1D, epsilon=epsilon) # next singular vector u_unnormalized = np.dot(A, v) sigma = norm(u_unnormalized) # next singular value u = u_unnormalized / sigma svdSoFar.append((sigma, u, v)) # transform it into matrices of the right shape singularValues, us, vs = [np.array(x) for x in zip(*svdSoFar)] return singularValues, us.T, vs

And we can run this on our movie rating matrix to get the following

>>> theSVD = svd(movieRatings) >>> theSVD[0] array([ 15.09626916, 4.30056855, 3.40701739]) >>> theSVD[1] array([[ 0.39458528, -0.23923093, 0.35446407], [ 0.15830233, -0.03054705, 0.15299815], [ 0.221552 , 0.52085578, -0.39336072], [ 0.39692636, 0.08649568, 0.41052666], [ 0.34630257, 0.64128719, -0.07384286], [ 0.53347448, -0.19169154, -0.19948959], [ 0.31660465, -0.0610941 , 0.30599629], [ 0.32840221, -0.45971273, -0.62353781]]) >>> theSVD[2] array([[ 0.54184805, 0.67071006, 0.50650638], [ 0.75151641, -0.11679644, -0.64929321], [-0.37632934, 0.73246611, -0.56733554]])

Checking this against our numpy output shows it’s within a reasonable level of precision (considering the power method took on the order of ten iterations!)

>>> np.round(np.abs(npSVD[0]) - np.abs(theSVD[1]), decimals=5) array([[ -0.00000000e+00, -0.00000000e+00, 0.00000000e+00], [ 0.00000000e+00, -0.00000000e+00, 0.00000000e+00], [ 0.00000000e+00, -1.00000000e-05, 1.00000000e-05], [ 0.00000000e+00, 0.00000000e+00, -0.00000000e+00], [ 0.00000000e+00, -0.00000000e+00, 1.00000000e-05], [ -0.00000000e+00, 0.00000000e+00, -0.00000000e+00], [ 0.00000000e+00, -0.00000000e+00, 0.00000000e+00], [ -0.00000000e+00, 1.00000000e-05, -1.00000000e-05]]) >>> np.round(np.abs(npSVD[2]) - np.abs(theSVD[2]), decimals=5) array([[ 0.00000000e+00, 0.00000000e+00, -0.00000000e+00], [ -1.00000000e-05, -1.00000000e-05, 1.00000000e-05], [ 1.00000000e-05, 0.00000000e+00, -1.00000000e-05]]) >>> np.round(np.abs(npSVD[1]) - np.abs(theSVD[0]), decimals=5) array([ 0., 0., -0.])

So there we have it. We added an extra little bit to the svd function, an argument which stops computing the svd after it reaches rank .

## CNN stories

One interesting use of the SVD is in topic modeling. Topic modeling is the process of taking a bunch of documents (news stories, or emails, or movie scripts, whatever) and grouping them by topic, where the algorithm gets to choose what counts as a “topic.” Topic modeling is just the name that natural language processing folks use instead of clustering.

The SVD can help one model topics as follows. First you construct a matrix called a *document-term matrix* whose rows correspond to words in some fixed dictionary and whose columns correspond to documents. The entry of contains the number of times word shows up in document . Or, more precisely, some quantity *derived* from that count, like a normalized count. See this table on wikipedia for a list of options related to that. We’ll just pick one arbitrarily for use in this post.

The point isn’t how we normalize the data, but what the SVD of means in this context. Recall that the domain of , as a linear map, is a vector space whose dimension is the number of stories. We think of the vectors in this space as *documents*, or rather as an “embedding” of the abstract concept of a document using the counts of how often each word shows up in a document as a proxy for the semantic meaning of the document. Likewise, the codomain is the space of all words, and each word is embedded by which documents it occurs in. If we compare this to the movie rating example, it’s the same thing: a movie is the vector of ratings it receives from people, and a person is the vector of ratings of various movies.

Say you take a rank 3 approximation to . Then you get three singular vectors which form a basis for a subspace of words, i.e., the “idealized” words. These idealized words are your topics, and you can compute where a “new word” falls by looking at which documents it appears in (writing it as a vector in the domain) and saying its “topic” is the closest of the . The same process applies to new documents. You can use this to cluster existing documents as well.

The dataset we’ll use for this post is a relatively small corpus of a thousand CNN stories picked from 2012. Here’s an excerpt from one of them

$ cat data/cnn-stories/story479.txt 3 things to watch on Super Tuesday Here are three things to watch for: Romney's big day. He's been the off-and-on frontrunner throughout the race, but a big Super Tuesday could begin an end game toward a sometimes hesitant base coalescing behind former Massachusetts Gov. Mitt Romney. Romney should win his home state of Massachusetts, neighboring Vermont and Virginia, ...

So let’s first build this document-term matrix, with the normalized values, and then we’ll compute it’s SVD and see what the topics look like.

Step 1 is cleaning the data. We used a bunch of routines from the nltk library that boils down to this loop:

for filename, documentText in documentDict.items(): tokens = tokenize(documentText) tagged_tokens = pos_tag(tokens) wnl = WordNetLemmatizer() stemmedTokens = [wnl.lemmatize(word, wordnetPos(tag)).lower() for word, tag in tagged_tokens]

This turns the Super Tuesday story into a list of words (with repetition):

["thing", "watch", "three", "thing", "watch", "big", ... ]

If you’ll notice the name Romney doesn’t show up in the list of words. I’m only keeping the words that show up in the top 100,000 most common English words, and then lemmatizing all of the words to their roots. It’s not a perfect data cleaning job, but it’s simple and good enough for our purposes.

Now we can create the document term matrix.

def makeDocumentTermMatrix(data): words = allWords(data) # get the set of all unique words wordToIndex = dict((word, i) for i, word in enumerate(words)) indexToWord = dict(enumerate(words)) indexToDocument = dict(enumerate(data)) matrix = np.zeros((len(words), len(data))) for docID, document in enumerate(data): docWords = Counter(document['words']) for word, count in docWords.items(): matrix[wordToIndex[word], docID] = count return matrix, (indexToWord, indexToDocument)

This creates a matrix with the raw integer counts. But what we need is a normalized count. The idea is that a common word like “thing” shows up disproportionately more often than “election,” and we don’t want raw magnitude of a word count to outweigh its semantic contribution to the classification. This is the applied math part of the algorithm design. So what we’ll do (and this technique together with SVD is called latent semantic indexing) is normalize each entry so that it measures both the frequency of a term in a document and the relative frequency of a term compared to the global frequency of that term. There are many ways to do this, and we’ll just pick one. See the github repository if you’re interested.

So now lets compute a rank 10 decomposition and see how to cluster the results.

data = load() matrix, (indexToWord, indexToDocument) = makeDocumentTermMatrix(data) matrix = normalize(matrix) sigma, U, V = svd(matrix, k=10)

This uses our svd, not numpy’s. Though numpy’s routine is much faster, it’s fun to see things work with code written from scratch. The result is too large to display here, but I can report the singular values.

>>> sigma array([ 42.85249098, 21.85641975, 19.15989197, 16.2403354 , 15.40456779, 14.3172779 , 13.47860033, 13.23795002, 12.98866537, 12.51307445])

Now we take our original inputs and project them onto the subspace spanned by the singular vectors. This is the part that represents each word (resp., document) in terms of the idealized words (resp., documents), the singular vectors. Then we can apply a simple k-means clustering algorithm to the result, and observe the resulting clusters as documents.

projectedDocuments = np.dot(matrix.T, U) projectedWords = np.dot(matrix, V.T) documentCenters, documentClustering = cluster(projectedDocuments) wordCenters, wordClustering = cluster(projectedWords) wordClusters = [ [indexToWord[i] for (i, x) in enumerate(wordClustering) if x == j] for j in range(len(set(wordClustering))) ] documentClusters = [ [indexToDocument[i]['text'] for (i, x) in enumerate(documentClustering) if x == j] for j in range(len(set(documentClustering))) ]

And now we can inspect individual clusters. Right off the bat we can tell the clusters aren’t quite right simply by looking at the sizes of each cluster.

>>> Counter(wordClustering) Counter({1: 9689, 2: 1051, 8: 680, 5: 557, 3: 321, 7: 225, 4: 174, 6: 124, 9: 123}) >>> Counter(documentClustering) Counter({7: 407, 6: 109, 0: 102, 5: 87, 9: 85, 2: 65, 8: 55, 4: 47, 3: 23, 1: 15})

What looks wrong to me is the size of the largest word cluster. If we could group words by topic, then this is saying there’s a topic with over nine thousand words associated with it! Inspecting it even closer, it includes words like “vegan,” “skunk,” and “pope.” On the other hand, some word clusters are spot on. Examine, for example, the fifth cluster which includes words very clearly associated with crime stories.

>>> wordClusters[4] ['account', 'accuse', 'act', 'affiliate', 'allegation', 'allege', 'altercation', 'anything', 'apartment', 'arrest', 'arrive', 'assault', 'attorney', 'authority', 'bag', 'black', 'blood', 'boy', 'brother', 'bullet', 'candy', 'car', 'carry', 'case', 'charge', 'chief', 'child', 'claim', 'client', 'commit', 'community', 'contact', 'convenience', 'court', 'crime', 'criminal', 'cry', 'dead', 'deadly', 'death', 'defense', 'department', 'describe', 'detail', 'determine', 'dispatcher', 'district', 'document', 'enforcement', 'evidence', 'extremely', 'family', 'father', 'fear', 'fiancee', 'file', 'five', 'foot', 'friend', 'front', 'gate', 'girl', 'girlfriend', 'grand', 'ground', 'guilty', 'gun', 'gunman', 'gunshot', 'hand', 'happen', 'harm', 'head', 'hear', 'heard', 'hoodie', 'hour', 'house', 'identify', 'immediately', 'incident', 'information', 'injury', 'investigate', 'investigation', 'investigator', 'involve', 'judge', 'jury', 'justice', 'kid', 'killing', 'lawyer', 'legal', 'letter', 'life', 'local', 'man', 'men', 'mile', 'morning', 'mother', 'murder', 'near', 'nearby', 'neighbor', 'newspaper', 'night', 'nothing', 'office', 'officer', 'online', 'outside', 'parent', 'person', 'phone', 'police', 'post', 'prison', 'profile', 'prosecute', 'prosecution', 'prosecutor', 'pull', 'racial', 'racist', 'release', 'responsible', 'return', 'review', 'role', 'saw', 'scene', 'school', 'scream', 'search', 'sentence', 'serve', 'several', 'shoot', 'shooter', 'shooting', 'shot', 'slur', 'someone', 'son', 'sound', 'spark', 'speak', 'staff', 'stand', 'store', 'story', 'student', 'surveillance', 'suspect', 'suspicious', 'tape', 'teacher', 'teen', 'teenager', 'told', 'tragedy', 'trial', 'vehicle', 'victim', 'video', 'walk', 'watch', 'wear', 'whether', 'white', 'witness', 'young']

As sad as it makes me to see that ‘black’ and ‘slur’ and ‘racial’ appear in this category, it’s a reminder that naively using the output of a machine learning algorithm can perpetuate racism.

Here’s another interesting cluster corresponding to economic words:

>>> wordClusters[6] ['agreement', 'aide', 'analyst', 'approval', 'approve', 'austerity', 'average', 'bailout', 'beneficiary', 'benefit', 'bill', 'billion', 'break', 'broadband', 'budget', 'class', 'combine', 'committee', 'compromise', 'conference', 'congressional', 'contribution', 'core', 'cost', 'currently', 'cut', 'deal', 'debt', 'defender', 'deficit', 'doc', 'drop', 'economic', 'economy', 'employee', 'employer', 'erode', 'eurozone', 'expire', 'extend', 'extension', 'fee', 'finance', 'fiscal', 'fix', 'fully', 'fund', 'funding', 'game', 'generally', 'gleefully', 'growth', 'hamper', 'highlight', 'hike', 'hire', 'holiday', 'increase', 'indifferent', 'insistence', 'insurance', 'job', 'juncture', 'latter', 'legislation', 'loser', 'low', 'lower', 'majority', 'maximum', 'measure', 'middle', 'negotiation', 'offset', 'oppose', 'package', 'pass', 'patient', 'pay', 'payment', 'payroll', 'pension', 'plight', 'portray', 'priority', 'proposal', 'provision', 'rate', 'recession', 'recovery', 'reduce', 'reduction', 'reluctance', 'repercussion', 'rest', 'revenue', 'rich', 'roughly', 'sale', 'saving', 'scientist', 'separate', 'sharp', 'showdown', 'sign', 'specialist', 'spectrum', 'spending', 'strength', 'tax', 'tea', 'tentative', 'term', 'test', 'top', 'trillion', 'turnaround', 'unemployed', 'unemployment', 'union', 'wage', 'welfare', 'worker', 'worth']

One can also inspect the stories, though the clusters are harder to print out here. Interestingly the first cluster of documents are stories exclusively about Trayvon Martin. The second cluster is mostly international military conflicts. The third cluster also appears to be about international conflict, but what distinguishes it from the first cluster is that every story in the second cluster discusses Syria.

>>> len([x for x in documentClusters[1] if 'Syria' in x]) / len(documentClusters[1]) 0.05555555555555555 >>> len([x for x in documentClusters[2] if 'Syria' in x]) / len(documentClusters[2]) 1.0

Anyway, you can explore the data more at your leisure (and tinker with the parameters to improve it!).

## Issues with the power method

Though I mentioned that the power method isn’t an industry strength algorithm I didn’t say why. Let’s revisit that before we finish. The problem is that the convergence rate of even the 1-dimensional problem depends on the ratio of the first and second singular values, . If that ratio is very close to 1, then the convergence will take a long time and need many many matrix-vector multiplications.

One way to alleviate that is to do the trick where, to compute a large power of a matrix, you iteratively square . But that requires computing a matrix square (instead of a bunch of matrix-vector products), and that requires a lot of time and memory if the matrix isn’t sparse. When the matrix is sparse, you can actually do the power method quite quickly, from what I’ve heard and read.

But nevertheless, the industry standard methods involve computing a particular matrix decomposition that is not only faster than the power method, but also numerically stable. That means that the algorithm’s runtime and accuracy doesn’t depend on slight changes in the entries of the input matrix. Indeed, you can have two matrices where is very close to 1, but changing a single entry will make that ratio much larger. The power method depends on this, so it’s not numerically stable. But the industry standard technique is not. This technique involves something called Householder reflections. So while the power method was great for a proof of concept, there’s much more work to do if you want true SVD power.

Until next time!

“It is also easy to see why the u_i are orthogonal (prove it as an exercise)”

Well, I know that A can be polar decomposed as A = S sqrt(T*T), where S is an isometry and T*T (T* is the Hilbert-adjoint of T) is positive semi-definite, whose eigenvectors are the v_i. Wtih few more details, this explains why the u_i are orthogonal. (See Linear Algebra Done Right by Axler for more details.)

But I can’t quite see how we can make a simpler argument just based on the contents of this article. I’ll keep thinking though.

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Can’t figure out a proof for the orthogonality of u_i too.

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My approach is straightforward. It feels like a mix of a sandwich and perhaps cheating. It is to ask that you calculate the SVD for this matrix A, as in the article, and for this other matrix B. In both cases you get some kind of factorization of U, Diagonal Matrix with Singular Values, and then the V, which in its transposed form has orthogonal vectors in its rows.

Then I tell you that B is just $A^T$. So if you transpose your original factorisation of A, you get the new factorisation for B. The Diagonal Matrix is unchanged (at least if A is square, otherwise it is still the ‘same’ but with different dimensions). The key thing is that when you decomposed B, you knew the third matrix — $V^T$ — had orthogonal rows. But if you tranpose B and ‘convert’ it back into A, the $V^T$ for B’s factorisation is transposed into the U position and hence those orthogonal rows became orthogonal columns for U in A.

Alternatively, there is a mathy-er explanation here:

http://codingthematrix.com/proof-that-U-is-column-orthogonal0.pdf

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Another solution:

Let 1 ≤ i,j ≤ r

= uᵢᵀ ⋅ uⱼ

= (A ⋅ vᵢ / 𝜎ᵢ)ᵀ ⋅ (A ⋅ vⱼ / 𝜎ⱼ)

= vᵢᵀ ⋅ Aᵀ ⋅ A ⋅ vⱼ / (𝜎ᵢ * 𝜎ⱼ)

We know that vⱼ is an eigenvector of (Aᵀ ⋅ A) with corresponding eigenvalue 𝜎ⱼ²

= 𝜎ⱼ² vᵢᵀ ⋅ vⱼ / (𝜎ᵢ * 𝜎ⱼ) = (𝜎ⱼ/𝜎ᵢ)

and, since {v₁, … , vₙ} is orthonormal,

= 𝛿(i,j)

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I just read the first lines, but I think there is an error in the first equation, if y= av is the projection of x over the unit vector v then

x = x-av + av = x-y + y and now x-y and y are ortogonal, so

|x|^2 = |x-av|^2 + |av|^2, but |x – av| is not the distance between x and v. So the equation is wrong.

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Sorry for the noise, I reread the post and you define d_v(x) as d(L(v),x) with L(v) the linear span of v. So the equation is right.

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״Well formally they only span a basis of the column space of A…”

Should this be row space?

Great post.

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Yes you’re right. Fixed. Ironic how that mistake was in a sanity check 🙂

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An idle question about SVD: suppose I take a series of digital photos with the ‘hold down for multiple’ feature on my camera. I do an SVD of the first photo, set the trailing singular values to 0, multiply the UeV matrics back together to get a denoised version of my photo.

The SVD output from a photo creates a data model for denoising that photo. Is there any way to use the SVD output of the one photo to denoise the remaining photos? After all, the remaining photos are very similar to the first, since they were shot in sequence with the same sensor, lighting, etc.

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Thanks Jeremy, great posts as always.

After reading the two posts, I have to say the greedy algorithm analogy click for me as well 😉

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Spent the entire day reading both the parts and understood this concept very well. Thanks for explaining so clearly.

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Overall a very good read.

One nit at the end: shouldn’t the end really say the the rate of convergence in the power method is where and

It is after all the eigs that determine convergence for the Power Method.

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I agree the comment with Nir, could anyone pls given some explanation regarding this point?

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Nir is correct. I have fixed the post.

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Awesome article,

One thing confuses me.

The way you constructed the SVD make it seems like i could generate an alternative SVD decompostion by picking a random orthogonal matrix V, calculate the sigmas as the sum squared distance of A from the columns of V and set up U columns with the formula you provided (u_i=A*v_i/sigma_i).

But SVD decomposition should be unique, so what am i missing?

Why this decomposition method only works when selecting V columns as the vectors with the minimum least squares distance from of A rows?

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You’re right, you could compute a decomposition that way. In other words, SVD is not particular in the syntax of its decomposition, but rather in the semantics of it.

Indeed, if you picked a random orthogonal matrix, you’re essentially picking random unit vectors and projecting a dataset onto those. This is actually useful in some situations.

However, the subspaces you get don’t approximate the subspaces spanned by the original data, and in particular they don’t form a sequence of increasingly good approximations. In other words, you don’t get any of the theorems we claimed about the SVD. The process is not unique, but the subspaces you arrive at when doing the SVD are unique.

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I still think this is a good article — and the coding examples are nice.

That said, I really think “Linear Algebra Done Wrong” –a great freely available text– has the best constructive approach to describing the SVD and proofs of its attributes. The issue, though, is to really understand where these values and orthogonal matrices come from, you really need to start with the Schur Decomposition. Arguably this is the single most important result in Linear Algebra, but for whatever reason I don’t think that many people are familiar with Schur.

You really can’t pick a random orthogonal matrix — it must be one that uses the eigenvectors of AA^T or ##A^T A##. (If one of said matrices have eigs == 0, there may be a bit more flexibility, which is quite common and actually inevitable when dealing with non-square A — but you can relegate said flexibility to the nullspace which isn’t that interesting in my view.) From here you of course could permute the orderings of the eigenvalues and their mutually orthonormal eigenvectors. But that’s really it.

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j2kun, D,

I’ve looked into the proof in “Linear Algebra Done Wrong” (indeed a great book). From what i gathered, if you want U to be an orthogonal base (like we do in SVD), then V has to be the eigenvectors of AA^T. If you don’t care about U orthogonality, and just want some general decomposition of the structure UDV^T, there is nothing i mange to see in the proof that prevent you to choose V and sigma at random..

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Well, in order for D to be diagonal, yes you need to choose V and U special. But if D can be any old matrix, then the decomposition is just the expression of A in a new, randomly chosen basis.

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amitm02,

The thrust is that eigenvalues (or spectrum) are perhaps the most important thing in Linear Algebra. But they only apply to square matrices. The SVD was designed to allow you to generalize a lot of the power of eigenvalues to non-square matrices. If you don’t insist on U and V being orthogonal, you break that link.

Btw, are you aware that trace(AA^T) = trace(A^TA) = squared Frobenius norm of A? You can follow this by blocking the matrix multiplication and looking at the diagonal — then follow up and look at the eigenvalues for AA^T and A^TA (because trace is also always the sum of eigenvalues — via cyclic property of trace and Schur decomposition). One big well known use for SVD is to get best low rank approximation of a matrix and your measuring stick typically is the Frobenius norm. Using orthogonal matrices in SVD allows you to get a clean cut and determine the best k-rank approximation. If you don’t select U and V to be orthogonal matrices, you have no reason to believe that D (or more commonly Sigma) tells you anything directly about the Frobenius norm / best k rank approximation of the matrix. Only orthogonal matrices (or unitary in complex space) ‘disappear’ as part of an inner product. Orthogonal matrices also behave well numerically, so the SVD allows you to isolate where instability comes into play in solving / approximating systems of equations– so called ill conditioning, by looking at the singular values.

Ultimately you use the appropriate factorization to suit your goals.

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Awesome post! Thank you for the great blog, this post in particular. I wanted to note a typo: $c_i \sigma_j^{2s}$ should be $c_j \sigma_j^{2s}$ during the proof of the lim $B^sx$, when you dot product $B^sx$ with $v_j$.

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