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Math::FFT

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Module Version: 1.28   Source

NAME

SYNOPSIS

DESCRIPTION

FFT
METHODS

CLONING

APPLICATIONS

STATISTICAL
FUNCTIONS

BUGS

SEE
ALSO

COPYRIGHT

NAME

Math::FFT - Perl module to calculate Fast Fourier Transforms

SYNOPSIS

use Math::FFT;
my $PI = 3.1415926539;
my $N = 64;
my ($series, $other_series);
for (my $k=0; $k<$N; $k++) {
$series->[$k] = sin(4*$k*$PI/$N) + cos(6*$k*$PI/$N);
}
my $fft = new Math::FFT($series);
my $coeff = $fft->rdft();
my $spectrum = $fft->spctrm;
my $original_data = $fft->invrdft($coeff);

for (my $k=0; $k<$N; $k++) {
$other_series->[$k] = sin(16*$k*$PI/$N) + cos(8*$k*$PI/$N);
}
my $other_fft = $fft->clone($other_series);
my $other_coeff = $other_fft->rdft();
my $correlation = $fft->correl($other_fft);

DESCRIPTION

This module implements some algorithms for calculating Fast Fourier
Transforms for one-dimensional data sets of size 2^n. The data, assumed to arise
from a constant sampling rate, is represented by an array reference
$data (as described in the methods below), which is then used to
create a Math::FFT object as

my $fft = new Math::FFT($data);

The methods available include the following.

FFT METHODS

$coeff =
$fft->cdft();

This calculates the complex discrete Fourier transform for a data set
x[j]. Here, $data is a reference to an array
data[0...2*n-1] holding the data

data[2*j] = Re(x[j]),
data[2*j+1] = Im(x[j]), 0<=j<n

An array reference $coeff is returned consisting of

coeff[2*k] = Re(X[k]),
coeff[2*k+1] = Im(X[k]), 0<=k<n

where

X[k] = sum_j=0^n-1 x[j]*exp(2*pi*i*j*k/n), 0<=k<n

$orig_data =
$fft->invcdft([$coeff]);

Calculates the inverse complex discrete Fourier transform on a data set
x[j]. If $coeff is not given, it will be set equal
to an earlier call to $fft->cdft(). $coeff is a
reference to an array coeff[0...2*n-1] holding the data

coeff[2*j] = Re(x[j]),
coeff[2*j+1] = Im(x[j]), 0<=j<n

An array reference $orig_data is returned consisting of

orig_data[2*k] = Re(X[k]),
orig_data[2*k+1] = Im(X[k]), 0<=k<n

where, excluding the scale,

X[k] = sum_j=0^n-1 x[j]*exp(-2*pi*i*j*k/n), 0<=k<n

A scaling $orig_data->[$i] *= 2.0/$n is then done so that
$orig_data coincides with the original $data.

$coeff =
$fft->rdft();

This calculates the real discrete Fourier transform for a data set
x[j]. On input, $data is a reference to an array
data[0...n-1] holding the data. An array reference
$coeff is returned consisting of

coeff[2*k] = R[k], 0<=k<n/2
coeff[2*k+1] = I[k], 0<k<n/2
coeff[1] = R[n/2]

where

R[k] = sum_j=0^n-1 data[j]*cos(2*pi*j*k/n), 0<=k<=n/2
I[k] = sum_j=0^n-1 data[j]*sin(2*pi*j*k/n), 0<k<n/2

$orig_data =
$fft->invrdft([$coeff]);

Calculates the inverse real discrete Fourier transform on a data set
coeff[j]. If $coeff is not given, it will be set
equal to an earlier call to $fft->rdft(). $coeff
is a reference to an array coeff[0...n-1] holding the data

coeff[2*j] = R[j], 0<=j<n/2
coeff[2*j+1] = I[j], 0<j<n/2
coeff[1] = R[n/2]

An array reference $orig_data is returned where, excluding the
scale,

orig_data[k] = (R[0] + R[n/2]*cos(pi*k))/2 +
sum_j=1^n/2-1 R[j]*cos(2*pi*j*k/n) +
sum_j=1^n/2-1 I[j]*sin(2*pi*j*k/n), 0<=k<n

A scaling $orig_data->[$i] *= 2.0/$n is then done so that
$orig_data coincides with the original $data.

$coeff =
$fft->ddct();

Computes the discrete cosine tranform on a data set
data[0...n-1] contained in an array reference $data.
An array reference $coeff is returned consisting of

coeff[k] = C[k], 0<=k<n

where

C[k] = sum_j=0^n-1 data[j]*cos(pi*(j+1/2)*k/n), 0<=k<n

$orig_data =
$fft->invddct([$coeff]);

Computes the inverse discrete cosine tranform on a data set
coeff[0...n-1] contained in an array reference
$coeff. If $coeff is not given, it will be set equal
to an earlier call to $fft->ddct(). An array reference
$orig_data is returned consisting of

orig_data[k] = C[k], 0<=k<n

where, excluding the scale,

C[k] = sum_j=0^n-1 coeff[j]*cos(pi*j*(k+1/2)/n), 0<=k<n

A scaling $orig_data->[$i] *= 2.0/$n is then done so that
$orig_data coincides with the original $data.

$coeff =
$fft->ddst();

Computes the discrete sine transform of a data set
data[0...n-1] contained in an array reference $data.
An array reference $coeff is returned consisting of

coeff[k] = S[k], 0<k<n
coeff[0] = S[n]

where

S[k] = sum_j=0^n-1 data[j]*sin(pi*(j+1/2)*k/n), 0<k<=n

$orig_data =
$fft->invddst($coeff);

Computes the inverse discrete sine transform of a data set
coeff[0...n-1] contained in an array reference
$coeff, arranged as

coeff[j] = A[j], 0<j<n
coeff[0] = A[n]

If $coeff is not given, it will be set equal to an earlier
call to $fft->ddst(). An array reference
$orig_data is returned consisting of

orig_data[k] = S[k], 0<=k<n

where, excluding a scale,

S[k] = sum_j=1^n A[j]*sin(pi*j*(k+1/2)/n), 0<=k<n

The scaling $a->[$i] *= 2.0/$n is then done so that
$orig_data coincides with the original $data.

$coeff =
$fft->dfct();

Computes the real symmetric discrete Fourier transform of a data set
data[0...n] contained in the array reference $data.
An array reference $coeff is returned consisting of

coeff[k] = C[k], 0<=k<=n

where

C[k] = sum_j=0^n data[j]*cos(pi*j*k/n), 0<=k<=n

$orig_data =
$fft->invdfct($coeff);

Computes the inverse real symmetric discrete Fourier transform of a data
set coeff[0...n] contained in the array reference
$coeff. If $coeff is not given, it will be set equal
to an earlier call to $fft->dfct(). An array reference
$orig_data is returned consisting of

orig_data[k] = C[k], 0<=k<=n

where, excluding the scale,

C[k] = sum_j=0^n coeff[j]*cos(pi*j*k/n), 0<=k<=n

A scaling $coeff->[0] *= 0.5, $coeff->[$n] *=
0.5, and $orig_data->[$i] *= 2.0/$n is then done so
that $orig_data coincides with the original
$data.

$coeff =
$fft->dfst();

Computes the real anti-symmetric discrete Fourier transform of a data set
data[0...n-1] contained in the array reference
$data. An array reference $coeff is returned
consisting of

coeff[k] = C[k], 0<k<n

where

C[k] = sum_j=0^n data[j]*sin(pi*j*k/n), 0<k<n

(coeff[0] is used for a work area)

$orig_data =
$fft->invdfst($coeff);

Computes the inverse real anti-symmetric discrete Fourier transform of a
data set coeff[0...n-1] contained in the array reference
$coeff. If $coeff is not given, it will be set equal
to an earlier call to $fft->dfst(). An array reference
$orig_data is returned consisting of

orig_data[k] = C[k], 0<k<n

where, excluding the scale,

C[k] = sum_j=0^n coeff[j]*sin(pi*j*k/n), 0<k<n

A scaling $orig_data->[$i] *= 2.0/$n is then done so that
$orig_data coincides with the original
$data.

CLONING

The algorithm used in the transforms makes use of arrays for a work area and
for a cos/sin lookup table dependent only on the size of the data set. These
arrays are initialized when the Math::FFT object is created and
then are populated when a transform method is first invoked. After this, they
persist for the lifetime of the object.

This aspect is exploited in a cloning method; if a
Math::FFT object is created for a data set $data1 of
size N:

$fft1 = new Math::FFT($data1);

then a new Math::FFT object can be created for a second data set
$data2 of the same size N by

$fft2 = $fft1->clone($data2);

The $fft2 object will copy the reuseable work area and lookup
table calculated from $fft1.

APPLICATIONS

This module includes some common applications - correlation, convolution and
deconvolution, and power spectrum - that arise with real data sets. The
conventions used here follow that of Numerical Recipes in C, by Press,
Teukolsky, Vetterling, and Flannery, in which further details of the algorithms
are given. Note in particular the treatment of end effects by zero padding,
which is assumed to be done by the user, if required.

Correlation

The correlation between two functions is defined as

/
Corr(t) = | ds g(s+t) h(s)
/

This may be calculated, for two array references $data1 and
$data2 of the same size $n, as either

$fft1 = new Math::FFT($data1);
$fft2 = new Math::FFT($data2);
$corr = $fft1->correl($fft2);

or as

$fft1 = new Math::FFT($data1);
$corr = $fft1->correl($data2);

The array reference $corr is returned in wrap-around order -
correlations at increasingly positive lags are in $corr->[0]
(zero lag) on up to $corr->[$n/2-1], while correlations at
increasingly negative lags are in $corr->[$n-1] on down to
$corr->[$n/2]. The sign convention used is such that if
$data1 lags $data2 (that is, is shifted to the
right), then $corr will show a peak at positive lags.

Convolution

The convolution of two functions is defined as

/
Convlv(t) = | ds g(s) h(t-s)
/

This is similar to calculating the correlation between the two functions,
but typically the functions here have a quite different physical
interpretation - one is a signal which persists indefinitely in time, and the
other is a response function of limited duration. The convolution may be
calculated, for two array references $data and
$respn, as

$fft = new Math::FFT($data);
$convlv = $fft->convlv($respn);

with the returned $convlv being an array reference. The method
assumes that the response function $respn has an odd
number of elements $m less than or equal to the number of
elements $n of $data. $respn is assumed
to be stored in wrap-around order - the first half contains the response at
positive times, while the second half, counting down from
$respn->[$m-1], contains the response at negative times.

Deconvolution

Deconvolution undoes the effects of convoluting a signal with a known
response function. In other words, in the relation

/
Convlv(t) = | ds g(s) h(t-s)
/

deconvolution reconstructs the original signal, given the convolution and
the response function. The method is implemented, for two array references
$data and $respn, as

$fft = new Math::FFT($data);
$deconvlv = $fft->deconvlv($respn);

As a result, if the convolution of a data set $data with a
response function $respn is calculated as

$fft1 = new Math::FFT($data);
$convlv = $fft1->convlv($respn);

then the deconvolution

$fft2 = new Math::FFT($convlv);
$deconvlv = $fft2->deconvlv($respn);

will give an array reference $deconvlv containing the same
elements as the original data $data.

Power Spectrum

If the FFT of a real function of N elements is calculated, the
N/2+1 elements of the power spectrum are defined, in terms of the
(complex) Fourier coefficients C[k], as

P[0] = |C[0]|^2 / N^2
P[k] = 2 |C[k]|^2 / N^2 (k = 1, 2 ,..., N/2-1)
P[N/2] = |C[N/2]|^2 / N^2

Often for these purposes the data is partitioned into K
segments, each containing 2M elements. The power spectrum for
each segment is calculated, and the net power spectrum is the average of all
of these segmented spectra.

Partitioning may be done in one of two ways: non-overlapping and
overlapping. Non-overlapping is useful when the data set is gathered in
real time, where the number of data points can be varied at will. Overlapping
is useful where there is a fixed number of data points. In non-overlapping,
the first <2M> elements constitute segment 1, the next 2M
elements are segment 2, and so on up to segment K, for a total of
2KM sampled points. In overlapping, the first and second
M elements are segment 1, the second and third M
elements are segment 2, and so on, for a total of (K+1)M sampled
points.

A problem that may arise in this procedure is leakage: the power
spectrum calculated for one bin contains contributions from nearby bins. To
lessen this effect data windowing is often used: multiply the original
data d[j] by a window function w[j], where j = 0, 1,
..., N-1. Some popular choices of such functions are

| j - N/2 |
w[j] = 1 - | ------- | ... Bartlett
| N/2 |

/ j - N/2 \ 2
w[j] = 1 - | ------- | ... Welch
\ N/2 /

1 / \
w[j] = --- |1 - cos(2 pi j / N) | ... Hann
2 \ /

The spctrm method, used as

$fft = Math::FFT->new($data);
$spectrum = $fft->spctrm(%options);

returns an array reference $spectrum representing the power
spectrum for a data set represented by an array reference $data.
The options available are

window =>
window_name

This specifies the window function; if not given, no such function is
used. Accepted values (see above) are "bartlett",
"welch", "hann", and \&my_window,
where my_window is a user specified subroutine which must be of
the form, for example,

sub my_window {
my ($j, $n) = @_;
return 1 - abs(2*($j-$n/2)/$n);
}

which implements the Bartlett window.

overlap =>
1

This specifies whether overlapping should be done; if true (1),
overlapping will be used, whereas if false (0), or not specified, no
overlapping is used.

segments =>
n

This specifies that the data will be partitioned into n
segments. If not specified, no segmentation will be done.

number => m

This specifies that 2m data points will be used for each
segment, and must be a power of 2. The power spectrum returned will consist
of m+1 elements.

STATISTICAL FUNCTIONS

For convenience, a number of common statistical functions are included for
analyzing real data. After creating the object as

my $fft = new Math::FFT($data);

for a data set represented by the array reference $data of size
N, these methods may be called as follows.

$mean =
$fft->mean([$data]);

This returns the mean

1/N * sum_j=0^N-1 data[j]

If an array reference $data is not given, the data set used in
creating $fft will be used.

$stdev =
$fft->stdev([$data]);

This returns the standard deviation

sqrt{ 1/(N-1) * sum_j=0^N-1 (data[j] - mean)**2 }

If an array reference $data is not given, the data set used in
creating $fft will be used.

$rms =
$fft->rms([$data]);

This returns the root mean square

sqrt{ 1/N * sum_j=0^N-1 (data[j])**2 }

If an array reference $data is not given, the data set used in
creating $fft will be used.

($min, $max) =
$fft->range([$data]);

This returns the minimum and maximum values of the data set. If an array
reference $data is not given, the data set used in creating
$fft will be used.

$median =
$fft->median([$data]);

This returns the median of a data set. The median is defined, for the
sorted data set, as either the middle element, if the number of
elements is odd, or as the interpolated value of the the two values on either
side of the middle, if the number of elements is even. If an array reference
$data is not given, the data set used in creating
$fft will be used.

BUGS

Please report any to Randy Kobes <[email-masked]>

SEE ALSO

Math::Pari and PDL

COPYRIGHT

The algorithm used in this module to calculate the Fourier transforms is
based on the C routine of fft4g.c available at http://momonga.t.u-tokyo.ac.jp/~ooura/fft.html,
which is copyrighted 1996-99 by Takuya OOURA. The file arrays.c included here to
handle passing arrays to and from C comes from the PGPLOT module of Karl
Glazebrook <[email-masked]>. The perl code of Math::FFT is
copyright 2000,2005 by Randy Kobes <[email-masked]>, and is
distributed under the same terms as Perl itself.

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