This put up didn’t find yourself fairly the best way I’d imagined. A fast follow-up on the latest Time sequence prediction with
FNN-LSTM, it was purported to display how noisy time sequence (so widespread in
apply) may revenue from a change in structure: As a substitute of FNN-LSTM, an LSTM autoencoder regularized by false nearest
neighbors (FNN) loss, use FNN-VAE, a variational autoencoder constrained by the identical. Nonetheless, FNN-VAE didn’t appear to deal with
noise higher than FNN-LSTM. No plot, no put up, then?
However – this isn’t a scientific research, with speculation and experimental setup all preregistered; all that basically
issues is that if there’s one thing helpful to report. And it appears like there may be.
Firstly, FNN-VAE, whereas on par performance-wise with FNN-LSTM, is much superior in that different which means of “efficiency”:
Coaching goes a lot sooner for FNN-VAE.
Secondly, whereas we don’t see a lot distinction between FNN-LSTM and FNN-VAE, we do see a transparent influence of utilizing FNN loss. Including in FNN loss strongly reduces imply squared error with respect to the underlying (denoised) sequence – particularly within the case of VAE, however for LSTM as nicely. That is of specific curiosity with VAE, because it comes with a regularizer
out-of-the-box – specifically, Kullback-Leibler (KL) divergence.
After all, we don’t declare that related outcomes will all the time be obtained on different noisy sequence; nor did we tune any of
the fashions “to loss of life.” For what may very well be the intent of such a put up however to indicate our readers fascinating (and promising) concepts
to pursue in their very own experimentation?
The context
This put up is the third in a mini-series.
In Deep attractors: The place deep studying meets chaos, we
defined, with a considerable detour into chaos principle, the concept of FNN loss, launched in (Gilpin 2020). Please seek the advice of
that first put up for theoretical background and intuitions behind the approach.
The following put up, Time sequence prediction with FNN-LSTM, confirmed
learn how to use an LSTM autoencoder, constrained by FNN loss, for forecasting (versus reconstructing an attractor). The outcomes have been beautiful: In multi-step prediction (12-120 steps, with that quantity various by
dataset), the short-term forecasts have been drastically improved by including in FNN regularization. See that second put up for
experimental setup and outcomes on 4 very completely different, non-synthetic datasets.
Immediately, we present learn how to substitute the LSTM autoencoder by a – convolutional – VAE. In mild of the experimentation outcomes,
already hinted at above, it’s fully believable that the “variational” half is just not even so essential right here – {that a}
convolutional autoencoder with simply MSE loss would have carried out simply as nicely on these information. In truth, to search out out, it’s
sufficient to take away the decision to reparameterize() and multiply the KL part of the loss by 0. (We depart this to the
reader, to maintain the put up at cheap size.)
One final piece of context, in case you haven’t learn the 2 earlier posts and want to soar in right here instantly. We’re
doing time sequence forecasting; so why this speak of autoencoders? Shouldn’t we simply be evaluating an LSTM (or another kind of
RNN, for that matter) to a convnet? In truth, the need of a latent illustration is as a result of very concept of FNN: The
latent code is meant to replicate the true attractor of a dynamical system. That’s, if the attractor of the underlying
system is roughly two-dimensional, we hope to search out that simply two of the latent variables have appreciable variance. (This
reasoning is defined in a variety of element within the earlier posts.)
FNN-VAE
So, let’s begin with the code for our new mannequin.
The encoder takes the time sequence, of format batch_size x num_timesteps x num_features identical to within the LSTM case, and
produces a flat, 10-dimensional output: the latent code, which FNN loss is computed on.
library(tensorflow)
library(keras)
library(tfdatasets)
library(tfautograph)
library(reticulate)
library(purrr)
vae_encoder_model <- operate(n_timesteps,
n_features,
n_latent,
title = NULL) {
keras_model_custom(title = title, operate(self) {
self$conv1 <- layer_conv_1d(kernel_size = 3,
filters = 16,
strides = 2)
self$act1 <- layer_activation_leaky_relu()
self$batchnorm1 <- layer_batch_normalization()
self$conv2 <- layer_conv_1d(kernel_size = 7,
filters = 32,
strides = 2)
self$act2 <- layer_activation_leaky_relu()
self$batchnorm2 <- layer_batch_normalization()
self$conv3 <- layer_conv_1d(kernel_size = 9,
filters = 64,
strides = 2)
self$act3 <- layer_activation_leaky_relu()
self$batchnorm3 <- layer_batch_normalization()
self$conv4 <- layer_conv_1d(
kernel_size = 9,
filters = n_latent,
strides = 2,
activation = "linear"
)
self$batchnorm4 <- layer_batch_normalization()
self$flat <- layer_flatten()
operate (x, masks = NULL) {
x %>%
self$conv1() %>%
self$act1() %>%
self$batchnorm1() %>%
self$conv2() %>%
self$act2() %>%
self$batchnorm2() %>%
self$conv3() %>%
self$act3() %>%
self$batchnorm3() %>%
self$conv4() %>%
self$batchnorm4() %>%
self$flat()
}
})
}The decoder begins from this – flat – illustration and decompresses it right into a time sequence. In each encoder and decoder
(de-)conv layers, parameters are chosen to deal with a sequence size (num_timesteps) of 120, which is what we’ll use for
prediction under.
vae_decoder_model <- operate(n_timesteps,
n_features,
n_latent,
title = NULL) {
keras_model_custom(title = title, operate(self) {
self$reshape <- layer_reshape(target_shape = c(1, n_latent))
self$conv1 <- layer_conv_1d_transpose(kernel_size = 15,
filters = 64,
strides = 3)
self$act1 <- layer_activation_leaky_relu()
self$batchnorm1 <- layer_batch_normalization()
self$conv2 <- layer_conv_1d_transpose(kernel_size = 11,
filters = 32,
strides = 3)
self$act2 <- layer_activation_leaky_relu()
self$batchnorm2 <- layer_batch_normalization()
self$conv3 <- layer_conv_1d_transpose(
kernel_size = 9,
filters = 16,
strides = 2,
output_padding = 1
)
self$act3 <- layer_activation_leaky_relu()
self$batchnorm3 <- layer_batch_normalization()
self$conv4 <- layer_conv_1d_transpose(
kernel_size = 7,
filters = 1,
strides = 1,
activation = "linear"
)
self$batchnorm4 <- layer_batch_normalization()
operate (x, masks = NULL) {
x %>%
self$reshape() %>%
self$conv1() %>%
self$act1() %>%
self$batchnorm1() %>%
self$conv2() %>%
self$act2() %>%
self$batchnorm2() %>%
self$conv3() %>%
self$act3() %>%
self$batchnorm3() %>%
self$conv4() %>%
self$batchnorm4()
}
})
}Be aware that despite the fact that we known as these constructors vae_encoder_model() and vae_decoder_model(), there may be nothing
variational to those fashions per se; they’re actually simply an encoder and a decoder, respectively. Metamorphosis right into a VAE will
occur within the coaching process; in truth, the one two issues that can make this a VAE are going to be the
reparameterization of the latent layer and the added-in KL loss.
Talking of coaching, these are the routines we’ll name. The operate to compute FNN loss, loss_false_nn(), might be present in
each of the abovementioned predecessor posts; we kindly ask the reader to repeat it from considered one of these locations.
# to reparameterize encoder output earlier than calling decoder
reparameterize <- operate(imply, logvar = 0) {
eps <- k_random_normal(form = n_latent)
eps * k_exp(logvar * 0.5) + imply
}
# loss has 3 elements: NLL, KL, and FNN
# in any other case, that is simply regular TF2-style coaching
train_step_vae <- operate(batch) {
with (tf$GradientTape(persistent = TRUE) %as% tape, {
code <- encoder(batch[[1]])
z <- reparameterize(code)
prediction <- decoder(z)
l_mse <- mse_loss(batch[[2]], prediction)
# see loss_false_nn in 2 earlier posts
l_fnn <- loss_false_nn(code)
# KL divergence to an ordinary regular
l_kl <- -0.5 * k_mean(1 - k_square(z))
# total loss is a weighted sum of all 3 elements
loss <- l_mse + fnn_weight * l_fnn + kl_weight * l_kl
})
encoder_gradients <-
tape$gradient(loss, encoder$trainable_variables)
decoder_gradients <-
tape$gradient(loss, decoder$trainable_variables)
optimizer$apply_gradients(purrr::transpose(checklist(
encoder_gradients, encoder$trainable_variables
)))
optimizer$apply_gradients(purrr::transpose(checklist(
decoder_gradients, decoder$trainable_variables
)))
train_loss(loss)
train_mse(l_mse)
train_fnn(l_fnn)
train_kl(l_kl)
}
# wrap all of it in autograph
training_loop_vae <- tf_function(autograph(operate(ds_train) {
for (batch in ds_train) {
train_step_vae(batch)
}
tf$print("Loss: ", train_loss$end result())
tf$print("MSE: ", train_mse$end result())
tf$print("FNN loss: ", train_fnn$end result())
tf$print("KL loss: ", train_kl$end result())
train_loss$reset_states()
train_mse$reset_states()
train_fnn$reset_states()
train_kl$reset_states()
}))To complete up the mannequin part, right here is the precise coaching code. That is almost an identical to what we did for FNN-LSTM earlier than.
n_latent <- 10L
n_features <- 1
encoder <- vae_encoder_model(n_timesteps,
n_features,
n_latent)
decoder <- vae_decoder_model(n_timesteps,
n_features,
n_latent)
mse_loss <-
tf$keras$losses$MeanSquaredError(discount = tf$keras$losses$Discount$SUM)
train_loss <- tf$keras$metrics$Imply(title = 'train_loss')
train_fnn <- tf$keras$metrics$Imply(title = 'train_fnn')
train_mse <- tf$keras$metrics$Imply(title = 'train_mse')
train_kl <- tf$keras$metrics$Imply(title = 'train_kl')
fnn_multiplier <- 1 # default worth utilized in almost all instances (see textual content)
fnn_weight <- fnn_multiplier * nrow(x_train)/batch_size
kl_weight <- 1
optimizer <- optimizer_adam(lr = 1e-3)
for (epoch in 1:100) {
cat("Epoch: ", epoch, " -----------n")
training_loop_vae(ds_train)
test_batch <- as_iterator(ds_test) %>% iter_next()
encoded <- encoder(test_batch[[1]][1:1000])
test_var <- tf$math$reduce_variance(encoded, axis = 0L)
print(test_var %>% as.numeric() %>% spherical(5))
}Experimental setup and information
The concept was so as to add white noise to a deterministic sequence. This time, the Roessler
system was chosen, primarily for the prettiness of its attractor, obvious
even in its two-dimensional projections:
Determine 1: Roessler attractor, two-dimensional projections.
Like we did for the Lorenz system within the first a part of this sequence, we use deSolve to generate information from the Roessler
equations.
library(deSolve)
parameters <- c(a = .2,
b = .2,
c = 5.7)
initial_state <-
c(x = 1,
y = 1,
z = 1.05)
roessler <- operate(t, state, parameters) {
with(as.checklist(c(state, parameters)), {
dx <- -y - z
dy <- x + a * y
dz = b + z * (x - c)
checklist(c(dx, dy, dz))
})
}
instances <- seq(0, 2500, size.out = 20000)
roessler_ts <-
ode(
y = initial_state,
instances = instances,
func = roessler,
parms = parameters,
methodology = "lsoda"
) %>% unclass() %>% as_tibble()
n <- 10000
roessler <- roessler_ts$x[1:n]
roessler <- scale(roessler)Then, noise is added, to the specified diploma, by drawing from a standard distribution, centered at zero, with commonplace deviations
various between 1 and a couple of.5.
# add noise
noise <- 1 # additionally used 1.5, 2, 2.5
roessler <- roessler + rnorm(10000, imply = 0, sd = noise)Right here you’ll be able to examine results of not including any noise (left), commonplace deviation-1 (center), and commonplace deviation-2.5 Gaussian noise:
Determine 2: Roessler sequence with added noise. Prime: none. Center: SD = 1. Backside: SD = 2.5.
In any other case, preprocessing proceeds as within the earlier posts. Within the upcoming outcomes part, we’ll examine forecasts not simply
to the “actual,” after noise addition, check cut up of the information, but additionally to the underlying Roessler system – that’s, the factor
we’re actually desirous about. (Simply that in the actual world, we are able to’t do this examine.) This second check set is ready for
forecasting identical to the opposite one; to keep away from duplication we don’t reproduce the code.
n_timesteps <- 120
batch_size <- 32
gen_timesteps <- operate(x, n_timesteps) {
do.name(rbind,
purrr::map(seq_along(x),
operate(i) {
begin <- i
finish <- i + n_timesteps - 1
out <- x[start:end]
out
})
) %>%
na.omit()
}
prepare <- gen_timesteps(roessler[1:(n/2)], 2 * n_timesteps)
check <- gen_timesteps(roessler[(n/2):n], 2 * n_timesteps)
dim(prepare) <- c(dim(prepare), 1)
dim(check) <- c(dim(check), 1)
x_train <- prepare[ , 1:n_timesteps, , drop = FALSE]
y_train <- prepare[ , (n_timesteps + 1):(2*n_timesteps), , drop = FALSE]
ds_train <- tensor_slices_dataset(checklist(x_train, y_train)) %>%
dataset_shuffle(nrow(x_train)) %>%
dataset_batch(batch_size)
x_test <- check[ , 1:n_timesteps, , drop = FALSE]
y_test <- check[ , (n_timesteps + 1):(2*n_timesteps), , drop = FALSE]
ds_test <- tensor_slices_dataset(checklist(x_test, y_test)) %>%
dataset_batch(nrow(x_test))Outcomes
The LSTM used for comparability with the VAE described above is an identical to the structure employed within the earlier put up.
Whereas with the VAE, an fnn_multiplier of 1 yielded ample regularization for all noise ranges, some extra experimentation
was wanted for the LSTM: At noise ranges 2 and a couple of.5, that multiplier was set to five.
Consequently, in all instances, there was one latent variable with excessive variance and a second considered one of minor significance. For all
others, variance was near 0.
In all instances right here means: In all instances the place FNN regularization was used. As already hinted at within the introduction, the principle
regularizing issue offering robustness to noise right here appears to be FNN loss, not KL divergence. So for all noise ranges,
apart from FNN-regularized LSTM and VAE fashions we additionally examined their non-constrained counterparts.
Low noise
Seeing how all fashions did fantastically on the unique deterministic sequence, a noise degree of 1 can virtually be handled as
a baseline. Right here you see sixteen 120-timestep predictions from each regularized fashions, FNN-VAE (darkish blue), and FNN-LSTM
(orange). The noisy check information, each enter (x, 120 steps) and output (y, 120 steps) are displayed in (blue-ish) gray. In
inexperienced, additionally spanning the entire sequence, we have now the unique Roessler information, the best way they’d look had no noise been added.
Determine 3: Roessler sequence with added Gaussian noise of ordinary deviation 1. Gray: precise (noisy) check information. Inexperienced: underlying Roessler system. Orange: Predictions from FNN-LSTM. Darkish blue: Predictions from FNN-VAE.
Regardless of the noise, forecasts from each fashions look wonderful. Is that this as a result of FNN regularizer?
Taking a look at forecasts from their unregularized counterparts, we have now to confess these don’t look any worse. (For higher
comparability, the sixteen sequences to forecast have been initiallly picked at random, however used to check all fashions and
situations.)
Determine 4: Roessler sequence with added Gaussian noise of ordinary deviation 1. Gray: precise (noisy) check information. Inexperienced: underlying Roessler system. Orange: Predictions from unregularized LSTM. Darkish blue: Predictions from unregularized VAE.
What occurs after we begin to add noise?
Substantial noise
Between noise ranges 1.5 and a couple of, one thing modified, or turned noticeable from visible inspection. Let’s soar on to the
highest-used degree although: 2.5.
Right here first are predictions obtained from the unregularized fashions.
Determine 5: Roessler sequence with added Gaussian noise of ordinary deviation 2.5. Gray: precise (noisy) check information. Inexperienced: underlying Roessler system. Orange: Predictions from unregularized LSTM. Darkish blue: Predictions from unregularized VAE.
Each LSTM and VAE get “distracted” a bit an excessive amount of by the noise, the latter to an excellent greater diploma. This results in instances
the place predictions strongly “overshoot” the underlying non-noisy rhythm. This isn’t shocking, after all: They have been educated
on the noisy model; predict fluctuations is what they discovered.
Can we see the identical with the FNN fashions?
Determine 6: Roessler sequence with added Gaussian noise of ordinary deviation 2.5. Gray: precise (noisy) check information. Inexperienced: underlying Roessler system. Orange: Predictions from FNN-LSTM. Darkish blue: Predictions from FNN-VAE.
Curiously, we see a a lot better match to the underlying Roessler system now! Particularly the VAE mannequin, FNN-VAE, surprises
with an entire new smoothness of predictions; however FNN-LSTM turns up a lot smoother forecasts as nicely.
“Clean, becoming the system…” – by now you might be questioning, when are we going to provide you with extra quantitative
assertions? If quantitative implies “imply squared error” (MSE), and if MSE is taken to be some divergence between forecasts
and the true goal from the check set, the reply is that this MSE doesn’t differ a lot between any of the 4 architectures.
Put in a different way, it’s principally a operate of noise degree.
Nonetheless, we may argue that what we’re actually desirous about is how nicely a mannequin forecasts the underlying course of. And there,
we see variations.
Within the following plot, we distinction MSEs obtained for the 4 mannequin varieties (gray: VAE; orange: LSTM; darkish blue: FNN-VAE; inexperienced:
FNN-LSTM). The rows replicate noise ranges (1, 1.5, 2, 2.5); the columns characterize MSE in relation to the noisy(“actual”) goal
(left) on the one hand, and in relation to the underlying system on the opposite (proper). For higher visibility of the impact,
MSEs have been normalized as fractions of the utmost MSE in a class.
So, if we need to predict sign plus noise (left), it’s not extraordinarily important whether or not we use FNN or not. But when we need to
predict the sign solely (proper), with rising noise within the information FNN loss turns into more and more efficient. This impact is much
stronger for VAE vs. FNN-VAE than for LSTM vs. FNN-LSTM: The space between the gray line (VAE) and the darkish blue one
(FNN-VAE) turns into bigger and bigger as we add extra noise.
Determine 7: Normalized MSEs obtained for the 4 mannequin varieties (gray: VAE; orange: LSTM; darkish blue: FNN-VAE; inexperienced: FNN-LSTM). Rows are noise ranges (1, 1.5, 2, 2.5); columns are MSE as associated to the actual goal (left) and the underlying system (proper).
Summing up
Our experiments present that when noise is more likely to obscure measurements from an underlying deterministic system, FNN
regularization can strongly enhance forecasts. That is the case particularly for convolutional VAEs, and possibly convolutional
autoencoders basically. And if an FNN-constrained VAE performs as nicely, for time sequence prediction, as an LSTM, there’s a
sturdy incentive to make use of the convolutional mannequin: It trains considerably sooner.
With that, we conclude our mini-series on FNN-regularized fashions. As all the time, we’d love to listen to from you for those who have been in a position to
make use of this in your personal work!
Thanks for studying!
