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value | path stringlengths 12 229 | size int64 23 843k | source_encoding stringclasses 9
values | md5 stringlengths 32 32 | text stringlengths 23 843k |
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github | sunhongfu/scripts-master | pad_into_center.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/pad_into_center.m | 1,210 | utf_8 | ab74a76cd16f351c6d2e6238fc95017e | function xpad = pad_into_center(x, npad)
%function xpad = pad_into_center(x, npad)
% Zero pad an input signal x symmetrically around "0" (image center).
% Useful for DFT/FFT of PSF.
% todo: replace with matlab's padarray.m
% Originally by A. Yendiki, modified by Jeff Fessler, 2005-7-26.
if nargin < 1, help(mfilename)... |
github | sunhongfu/scripts-master | downsample2.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/downsample2.m | 796 | utf_8 | 45fe4dcbfeb45d32d39d0bc20299a641 | function y = downsample2(x, m, varargin)
%|function y = downsample2(x, m, varargin)
%| downsample by averaging by integer factors
%| m can be a scalar (same factor for both dimensions)
%| or a 2-vector
%| in
%| x [nx ny]
%| option
%| 'warn' 0|1 warn if non-integer factor. default: 1
%| out
%| y [nx/m ny/m]
if nargin... |
github | sunhongfu/scripts-master | reshaper.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/reshaper.m | 890 | utf_8 | b1851d49886b11b9ca0b1a4651a16a51 | function y = reshaper(x, dim)
%|function y = reshaper(x, dim)
%|
%| reshape function that is more flexible, allowing for "multiples".
%| example: reshape(rand(2*3*5,7), [2 3 5]) will become [2 3 5 7]
%|
%| in
%| x [*dim (Ld)]
%| dim short row or column
%| if dim is '2d' then y is 2d with first n-1 dims collapsed
%|
... |
github | sunhongfu/scripts-master | fld_write.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/fld_write.m | 5,854 | utf_8 | a537cbf0ff76de352fe949e0e946577d | function fld_write(file, data, varargin)
%|function fld_write(file, data, [options])
%| write data into AVS format .fld file
%| see ASPIRE user's guide (or AVS online documentation) for file format.
%|
%| todo: generalize to include 'extent' options and default
%|
%| options
%| 'check' 0|1 1: report error if file ex... |
github | sunhongfu/scripts-master | unpadn.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/unpadn.m | 818 | utf_8 | efcd912abfb2bb3205ef2bc3c72ff01c | function out = unpadn(mat, newdim)
%|function out = unpadn(mat, newdim)
%| pad old to newdim, preserving 'center point'
if nargin == 1 && streq(mat, 'test'), unpadn_test, return, end
if nargin < 2, error(mfilename), help(mfilename), end
olddim = size(mat);
if any(newdim > olddim), error('must be smaller'), end
idx ... |
github | sunhongfu/scripts-master | isvar.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/isvar.m | 1,105 | utf_8 | e6f2c6aa9ef51279a672904d75970008 | %|function tf = isvar(name)
%|
%| determine if "name" is a variable in the caller's workspace.
%|
%| if argument is of the form 'name.field' or 'name.field1.field2' etc.
%| then this uses isfield(st, 'field') recursively as needed
%|
%| Copyright 2000-01-01, Jeff Fessler, University of Michigan
%| modified 2010-04-21 t... |
github | sunhongfu/scripts-master | dft_sym_check.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/dft_sym_check.m | 1,124 | utf_8 | 2232513db8d14465e04adc59ed9f646e | function dft_sym_check(xk, varargin)
%function dft_sym_check(xk)
% see if array xk (usually containing DFT coefficients)
% obeys the conjugate symmetry conditions expected
% for its (inverse) DFT to be real.
if nargin == 1 && streq(xk, 'test'), dft_sym_check_test, return, end
if nargin < 1, help(mfilename), error(mfi... |
github | sunhongfu/scripts-master | dsingle.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/dsingle.m | 320 | utf_8 | 131f14ecc3813385227fdb653e79b58b | function [varargout] = dsingle(varargin)
%function y = dsingle(x)
% truncate a (possibly) double precision value to single precision,
% then convert back to "double" using double6:
% y = double6(single(x));
for ii=1:nargin
varargout{ii} = dsingle1(varargin{ii});
end
function y = dsingle1(x)
y = double6(single(x));
|
github | sunhongfu/scripts-master | jf_equal.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/jf_equal.m | 1,871 | utf_8 | 53cbc8605bbf1ab3fb4ec2641bc8bf9b | function jf_equal(a, b, varargin)
%|function jf_equal(a, b, varargin)
%|
%| verify that the two arguments are equal.
%| if not, print error message.
%| See also: equivs
%| note: to compare two (e.g. Fatrix) objects, use jf_equal(struct(a), struct(b))
%| option
%| 'warn' 0|1 if 0 (default) then fail; if 1 just warn in... |
github | sunhongfu/scripts-master | hist_equal.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/hist_equal.m | 2,496 | utf_8 | 0d27bae082772372de17cf66a6f14d6b | function [nk, center] = hist_equal(data, ncent, varargin)
%|function [nk, center] = hist_equal(data, ncent, varargin)
%|
%| fast histogram of multidimensional data into equally-spaced bins
%| todo: accumarray?
%|
%| in
%| data [N M] data values to be binned (M-dimensional)
%| ncent [1 M] # of centroids for each dim... |
github | sunhongfu/scripts-master | fwhm1.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/fwhm1.m | 1,785 | utf_8 | 521eddf7df2e4bf7dd77c7f89f15d48e | function [fw, hr, hl] = fwhm1(psfs, varargin)
%|function [fw, hr, hl] = fwhm1(psfs, options)
%| compute fwhm of point-spread function centered at pixel imid
%| and half-right width and half-left width (fw = hr + hl)
%| in
%| psfs [np nc] column psf(s)
%| option
%| imid [1] which pixel is the middle (default: peak)
%|... |
github | sunhongfu/scripts-master | ndgrid_jf.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/ndgrid_jf.m | 1,825 | utf_8 | 81141c55ae5b933826ba00a65b23fcc3 | function out = ndgrid_jf(otype, varargin)
%function out = ndgrid_jf('cell', varargin)
%function out = ndgrid_jf('mat', varargin)
%| version of ndgrid where output is cell array (default) or large matrix
%| think:
%| [out{1} ... out{M}] = ndgrid_cell(in{1}, ..., in{M});
%| also supported is ndgrid_jf('mat'|'cell', {in1... |
github | sunhongfu/scripts-master | kde_pmf_width.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/kde_pmf_width.m | 1,573 | utf_8 | 6c684711031188408ae21134004afd70 | function dx = kde_pmf_width(x, varargin)
%|function dx = kde_pmf_width(x, varargin)
%|
%| Determine bin width for kde_pmf1,2
%|
%| in
%| x [N 1] iid realizations of random variable pairs (x,y)
%|
%| option
%| 'type' 'silverman' to choose dx based on rule-of-thumb
%| using inter-quartile range (p48 of 1986 book)
%|... |
github | sunhongfu/scripts-master | arg_get.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/arg_get.m | 953 | utf_8 | 0e42582c06b61201a8a9468a8afcce32 | function [arg, ii] = arg_get(list, what, default)
%function [arg, ii] = arg_get(list, what, default)
% extract an argument (e.g., nx or pixel_size, etc.)
% from a list (vertically concatenated strings)
% e.g., as generated by arg_pair() or strvcat()
% the *first* match is used.
% Copyright 2005, Jeff Fessler, The Univ... |
github | sunhongfu/scripts-master | filtmat.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/filtmat.m | 3,758 | utf_8 | 4f6ac3e0ab4e6785b3698d7b1b702542 | function [mat, nexp] = filtmat(arg0, arg1, arg2, arg3, arg4)
%function mat = filtmat('1d', kernx, nx)
% 1d nonperiodic
%function mat = filtmat({'1d' 'per'}, kernx, nx)
% 1d periodic
%function mat = filtmat('2d,mul,sep', kernx, kerny, [nx ny])
% 2d multiplicatively separable nonperiodic
%function mat = filtmat('3... |
github | sunhongfu/scripts-master | remove_spaces.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/remove_spaces.m | 793 | utf_8 | 44dcf5c3a35ebc4ce3ddd6e590aab8a4 | function arg = remove_spaces(arg)
%|function arg = remove_spaces(arg)
%| replace extra spaces at ends of matrix string array with zeros.
%| also add extra '0' at end to be sure to null terminate string
%| Copyright May 2000, Jeff Fessler, University of Michigan
if nargin < 1, help(mfilename), error(mfilename), end
... |
github | sunhongfu/scripts-master | interp1_lagrange.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/interp1_lagrange.m | 1,111 | utf_8 | 2245c39a0a1bf94677de8caef3c0efe7 | function y = interp1_lagrange(xi, yi, x)
%function y = interp1_lagrange(xi, yi, x)
% Lagrange (1D) interpolation: polynomial of order length(xi)
% in: xi [n,1], yi [n,1], x [m,1]
% if yi is empty, then "y" is the m,n interpolation matrix
% Copyright 2003-5-13 Jeff Fessler The University of Michigan
if nargin < 3, int... |
github | sunhongfu/scripts-master | arg_pair.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/arg_pair.m | 1,517 | utf_8 | 5efeebd0651d931efc4ac151090edec1 | function arg = arg_pair(varargin)
%|function arg = arg_pair(varargin)
%|
%| construct AsciiArg pairs from input arguments
%| for building arguments akin to .dsc file
%| example: arg = arg_pair('system', 2, 'nx', 128, ...)
%|
%| Copyright May 2000, Jeff Fessler, University of Michigan
if nargin == 1 & streq(varargin... |
github | sunhongfu/scripts-master | upsample_rep.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/upsample_rep.m | 629 | utf_8 | 3db6e5ee1beac6a80b0a8880a17d5c3d | function y = upsample_rep(x, m)
%function y = upsample_rep(x, m)
% upsample a 2D image a factor of m by simple replication
if nargin == 1 && streq(x, 'test'), upsample_rep_test, return, end
if nargin < 1, help(mfilename), error(mfilename), end
if nargin < 2, m = [2 2]; end
y = upsample1_rep(x, m(1));
y = upsample1_r... |
github | sunhongfu/scripts-master | max_percent_diff.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/max_percent_diff.m | 1,971 | utf_8 | 0b4ab863976402c87de0914aa0e5a0a0 | function d = max_percent_diff(s1, s2, varargin)
%|function d = max_percent_diff(s1, s2, [options])
%|
%| compute the "maximum percent difference" between two signals: s1, s2
%| options
%| 1 use both arguments as the normalizer
%| string print this
%|
%| Copyright 2000-9-16, Jeff Fessler, University of Michigan
if ... |
github | sunhongfu/scripts-master | bspline_1d_coef.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/bspline_1d_coef.m | 5,143 | utf_8 | 68fc2ba254910a9aed75f78d9a852b84 | function coef = bspline_1d_coef(fn, varargin)
%|function coef = bspline_1d_coef(fn, varargin)
%|
%| Given f[n], uniformly spaced samples of a 1D signal f(t),
%| compute the bspline coefficients so that the following model interpolates:
%| f(t) = \sum_{k=0}^{N-1} coef[k] b(t - k)
%|
%| in
%| fn [N,(L)] 1d signal(s) of... |
github | sunhongfu/scripts-master | downsample1.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/downsample1.m | 1,242 | utf_8 | cde1ae93622ba9447977d20910d44b6d | function y = downsample1(x, down, varargin)
%|function y = downsample1(x, down, varargin)
%| downsample by factor m along first dimension by averaging
%|
%| in
%| x [n1 (Nd)]
%| down integer downsampling factor
%| option
%| 'warn' 0|1 warn if noninteger multiple (default: 1)
%| out
%| y [n1/down (Nd)]
%|
%| Copyri... |
github | sunhongfu/scripts-master | fwhm2.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/fwhm2.m | 3,918 | utf_8 | de4664218f9f1cae8bb7f5cd25d64465 | function [fw, angle, rad] = fwhm2(psf, varargin)
%|function [fw, angle, rad] = fwhm2(psf, [options])
%|
%| compute 2d fwhm of point-spread function using contourc()
%|
%| in
%| psf [nx ny] 2D psf image
%|
%| option
%| 'dx' pixel size (default 1)
%| 'dy' pixel size (default dx)
%| 'level' default 0.5 (for "half" ma... |
github | sunhongfu/scripts-master | poisson.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/poisson.m | 1,180 | utf_8 | 0265d6eb478b5a47dc8d273d2c07d330 | function data = poisson(xm, seed, varargin)
%|function data = poisson(xm, seed, [options])
%|
%| option
%| 'factor' see poisson2.m
%|
%| Generate Poisson random vector with mean xm.
%| For small, use poisson1.m
%| For large, use poisson2.m
%| see num. rec. C, P. 222
%|
%| Copyright 1997-4-29, Jeff Fessler, University ... |
github | sunhongfu/scripts-master | nrms.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/nrms.m | 1,109 | utf_8 | 042ba79752bcb9662b4db291ca79144b | function n = nrms(x, xtrue, arg)
%|function n = nrms(x, xtrue, arg)
%| normalized rms error
%| in
%| x [[Nd] Nrep] multiple x's for one xtrue
%| xtrue [[Nd]]
%| arg use '2' to do along 2nd dim for same size
%| out
%| scalar
%| vector if x and xtrue have same size and arg = 2
if nargin == 1 && streq(x, 'test'), nrms... |
github | sunhongfu/scripts-master | fld_read.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/fld_read.m | 12,334 | utf_8 | 4d7e7ee0934f826d43db5b5fe965f388 | function [data, coord, dims] = fld_read(file, varargin)
%|function [data, coord, dims] = fld_read(file, options)
%| Read data from AVS format .fld file.
%|
%| options
%| 'raw' 0|1 1: return raw data class (default), 0: return doubles
%| 'slice' int specify which slice to read from 3D file. (0 ... nz-1)
%| 'chat' 0|1 ... |
github | sunhongfu/scripts-master | outer_sum.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/outer_sum.m | 1,339 | utf_8 | 6fcbf93474fbbffdf7eb645159d64f36 | function ss = outer_sum(xx,yy)
%function ss = outer_sum(xx,yy)
% compute an "outer sum" x + y'
% that is analogous to the "outer product" x * y'
% in
% xx [nx,1]
% yy [1,ny]
% more generally: xx [(dim)] + yy [L,1] -> xx [(dim) LL]
% out
% ss [nx,ny] ss(i,j) = xx(i) + yy(j)
% Copyright 2001, Jeff Fessler, The Universi... |
github | sunhongfu/scripts-master | hist_bin_int.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/hist_bin_int.m | 3,687 | utf_8 | 2d4d4e6439eba6ef169ea21443b06188 | function [nk center] = hist_bin_int(data, varargin)
%|function [nk center] = hist_bin_int(data, varargin)
%|
%| fast histogram of multidimensional data into equally-spaced bins
%| todo: time this vs accumarray
%|
%| in
%| data [N M] data values to be binned (M-dimensional)
%| must be integer valued >= 1
%|
%| opt... |
github | sunhongfu/scripts-master | stackpick.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/stackpick.m | 1,177 | utf_8 | 94edbe3b375bee1198ac10df6439e535 | function y = stackpick(x, ii)
%|function y = stackpick(x, ii)
%| pick one (or more) of the last "slices" of a multi-dimensional array
%| think x(:,:,...,:,ii)
%| This is useful in conjunction with stackup().
%| Copyright 2005-6-18, Jeff Fessler, University of Michiga
if nargin == 1 && streq(x, 'test'), stackpick_test... |
github | sunhongfu/scripts-master | bspline_1d_interp.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/bspline_1d_interp.m | 3,926 | utf_8 | 0450bc0a6193efe6e03381d744ef3104 | function ft = bspline_1d_interp(fn, ti, varargin)
%|function ft = bspline_1d_interp(fn, ti, varargin)
%|
%| given f[n], the "unit spaced" samples of a continuous signal f(t),
%| perform b-spline interpolation at sample locations t_i using the model:
%| f(t) = \sum_{k=0}^{N-1} coef_k b(t - k)
%| where the coefficients... |
github | sunhongfu/scripts-master | ticker.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/ticker.m | 3,188 | utf_8 | d37224bdcbb9b5731efdb04eb3ef9d42 | function ticker(varargin)
%|function ticker(varargin)
%|
%| This utility is used in functions that might take a long time
%| to provide a status update so the user knows it is working.
%| "ticker print" to make output print to command window (default)
%| "ticker waitbar" to display using waitbar
%| ticker(waittime) to... |
github | sunhongfu/scripts-master | downsample3.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/downsample3.m | 1,725 | utf_8 | 3c07f350e6c231aa9b3ba83589194f0a | function y = downsample3(x, m)
%|function y = downsample3(x, m)
%| downsample by averaging by integer factors
%| m can be a scalar (same factor for both dimensions)
%| or a 3-vector
%| in
%| x [nx ny nz]
%| m [1] or [1 3]
%| out
%| y [nx/m ny/m nz/m]
%| function modified to 3D space by: Taka Masuda
if nargin == 1 & ... |
github | sunhongfu/scripts-master | embed.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/embed.m | 2,247 | utf_8 | 6120e062d8c154359dfcf977a07ce6eb | function ff = embed(x, mask, varargin)
%|function ff = embed(x, mask, varargin)
%| embed x in nonzero elements of (logical) mask
%| in
%| x [np (L)] the "nonzero" pixels (lexicographically stacked)
%| mask [(Nd)] logical array, np = sum(mask)
%| option
%| '*dim' {0|1} 0: [(N) (L)] (default); 1: return [(N) *L]
%| o... |
github | sunhongfu/scripts-master | lloyd_max_hist.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/lloyd_max_hist.m | 4,365 | utf_8 | 7c6c53b0980357b7e0752258250dbca4 | function centers = lloyd_max_hist(data, centers, MM, tol, max_iter, chat)
%|function centers = lloyd_max_hist(data, centers, MM, tol, max_iter, chat)
%|
%| "improved" version of the lloyd-max algorithm for scalar quantizer design
%| that saves computation by histogramming the data first.
%| Before using this, try usi... |
github | sunhongfu/scripts-master | num2list.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/num2list.m | 390 | utf_8 | 0076ebb4ee93b833462e21640099a15d | function varargout = num2list(x)
%function varargout = num2list(x)
%
% convert a numeric vector input into a comma separated list of output values
% DOES NOT WORK!
if nargin < 1, num2list_test, help(mfilename), error(mfilename), end
%nargout
%nargout = numel(x)
%varargout = cell(size(x));
for ii=1:numel(x)
varargou... |
github | sunhongfu/scripts-master | cpu.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/cpu.m | 1,462 | utf_8 | 9c3b3cf49d0fa8f7180049a943c9356b | function out = cpu(arg, varargin)
%|function out = cpu(arg, varargin)
%|
%| cpu etic
%| cpu etoc printarg
%| tic/toc elapsed time
%|
%| cpu etic
%| cpu tic
%| cpu toc
%| cpu toc printarg
%| work like tic/toc except they use cpu time instead of wall time.
%|
%| also:
%| If printarg begins with a ':' then caller_name p... |
github | sunhongfu/scripts-master | kde_pmf1.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/kde_pmf1.m | 4,806 | utf_8 | 014fb3c9ec686832ebae267a27b3f9e7 | function [pmf xs] = kde_pmf1(x, varargin)
%|function [pmf xs] = kde_pmf1(x, varargin)
%|
%| Compute an empirical probability mass function (PMF) using interpolation
%| that is similar to a kernel density estimate.
%| This routine is useful for making PMFs (interpolated / smoothed) histograms
%| for computing entropy ... |
github | sunhongfu/scripts-master | poly_string.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/poly_string.m | 1,452 | utf_8 | 5efc7525a6d221ad41a8e377311fd06c | function [str, d1, d2] = poly_string(order, varargin)
%function [str, d1, d2] = poly_string(order, [options])
% make a string with all the terms in a 2d polynomial
% up to given order, e.g. [1+0*x x y ...]
% also return partial derivatives w.r.t. x and y
% in
% order
% options
% maxdegree maximum of sum of degrees (de... |
github | sunhongfu/scripts-master | run_mfile_local.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/run_mfile_local.m | 1,861 | utf_8 | 10ab734b28bb404cd05ded222b52fe5a | function run_mfile_local(arg, varargin)
%|function run_mfile_local(arg)
%| run an mfile in a local environment so that workspace variables
%| are untouched. useful for tests.
%| arg can be a cell with many mfiles to run
%| options
%| 'draw' 1|0 1 to draw after each test (default: 0)
%| 'pause' 1|0 1 to pause after e... |
github | sunhongfu/scripts-master | minmax.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/minmax.m | 2,324 | utf_8 | 1b60715426dbb9ffeb27f85aa09fff8a | function r = minmax(x, varargin)
%function r = minmax(x, dim)
% Return mininum and maximum of values of input x.
% Default is to examine the entire array.
% Specify a dimension dim otherwise.
% If dim is a string, print...
% Copyright 2003, Jeff Fessler, University of Michigan
if nargin < 1, help(mfilename), error(mf... |
github | sunhongfu/scripts-master | masker.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/masker.m | 884 | utf_8 | de844e9fcd7044d558d79c5644951dc9 | function y = masker(x, mask)
%|function y = masker(x, mask)
%| extract from x the nonzero elements within (logical) mask
%| in
%| x [(Nd) (L)] image(s)
%| mask [(Nd)] logical array, np = sum(mask)
%| out
%| y [np (L)] concise columns
%|
%| See also: embed
%|
%| Copyright 2004-9-28, Jeff Fessler, University of Michig... |
github | sunhongfu/scripts-master | truncate_precision.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/truncate_precision.m | 924 | utf_8 | 0f0d50a4e0af0fded1105d0ee262b6d8 | function y = truncate_precision(x, digits, varargin)
%|function y = truncate_precision(x, digits, [option])
%|
%| truncate x to "digits" signficant digits of precision
%| option
%| 'type' floor (default) | round | ceil
%|
%| Copyright 2008-11-05, Jeff Fessler, University of Michigan
if nargin == 1 && streq(x, 'test... |
github | sunhongfu/scripts-master | jf.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/jf.m | 4,286 | utf_8 | 4e7f9a86f93ffea5dbd3ef927829d18a | function out = jf(varargin)
%|function out = jf(varargin)
%| various personalization routines
%| 'mv var_old var_new'
%| 'ncore' # of cores this machine has
%| add optional 2nd argument to over-ride, e.g., jf('ncore', 4)
%| 'whos'
%| 'clf'
%| 'nobar' preclude toolbar and menubar from figures to render faster!
%| 'no... |
github | sunhongfu/scripts-master | vararg_pair.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/vararg_pair.m | 6,046 | utf_8 | 6b4318d95d5b5332f4aaf0ed91d43a86 | function [opt, extra] = vararg_pair(opt, varargs, varargin)
%function [opt, extra] = vararg_pair(opt, varargs, [options])
% Process name / value pairs, replacing the "default" field values
% of the opt structure with the user-specified values.
% This allows flexible argument order and "named arguments" somewhat like I... |
github | sunhongfu/scripts-master | reshapee.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/reshapee.m | 1,254 | utf_8 | 74240ee060a675b89895e56891c7460d | function y = reshapee(x, varargin)
%|function y = reshapee(x, varargin)
%|
%| reshape function that allows possibly one null argument, and all
%| other arguments can be vectors, unlike matlab that requires scalars.
%| example: reshape(rand(2*3*5,7), [2 3], [], 7) will become [2 3 5 7]
%|
%| in
%| x [(*dim)]
%| vararg... |
github | sunhongfu/scripts-master | sinc_periodic.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/sinc_periodic.m | 1,401 | utf_8 | 6ded04b3754f67a5d4372c05ed651386 | function x = sinc_periodic(t, K)
%|function x = sinc_periodic(t, K)
%| periodic sinc function, obtained by replicates of a sinc:
%| x(t) = \sum_l sinc(t - l K) = ... = sin(pi*t) / tan(pi*t/K) / K for K even.
%| This function is bandlimited and its samples are an impulse train.
%| It is closely related to the Dirichle... |
github | sunhongfu/scripts-master | poisson2.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/poisson2.m | 1,772 | utf_8 | 3b7335e80615537c281d420af6cce9fa | function data = poisson2(xm, varargin)
%|function data = poisson2(xm, [options])
%|
%| in
%| 'xm' float
%|
%| option
%| 'seed' int seed for 'rand'
%| 'factor' double a value < 1 for rejection method
%|
%| Generate Poisson random column vector with mean xm.
%| Uses rejection method - good for large values of xm.... |
github | sunhongfu/scripts-master | min_cos_quad.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/min_cos_quad.m | 3,173 | utf_8 | 096e10676fa8af29d31a265aa6d3c2dc | function t = min_cos_quad(m, p, b, c, niter)
%|function t = min_cos_quad(m, p, b, c, niter)
%|
%| find the minimizer of the sinusoid + quadratic form:
%| f(t) = m * (1-cos(t-p)) + b*t + c/2 t^2
%|
%| This is useful for certain phase-related optimization transfer problems.
%|
%| Copyright 2003-11-9, Jeff Fessler, Univ... |
github | sunhongfu/scripts-master | kde_pmf2.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/kde_pmf2.m | 6,301 | utf_8 | 2d56a911549ea0f282371a9122e09d0f | function [pmf xs ys] = kde_pmf2(x, y, varargin)
%|function [pmf xs ys] = kde_pmf2(x, y, varargin)
%|
%| Compute a 2D empirical joint probability mass function (PMF)
%| using interpolation that is similar to a kernel density estimate.
%| This joint PMF (interpolated / smoothed histogram) is useful for
%| computing joi... |
github | sunhongfu/scripts-master | rms.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/rms.m | 728 | utf_8 | 0d6bd4bfbbbaefcae75fe8279a34586a | function [rhat, s] = rms(x)
%function [rhat, s] = rms(x)
% function [r, s] = rms(err)
% in:
% x: NxM error vectors
% out:
% r: Mx1 estimate of rms error
% s: Mx1 estimate of std. dev. of that estimate
if streq(x, 'test'), rms_test, return, end
N = nrow(x); if (N==1), error('ERROR: use column vector'), end
bs = mean... |
github | sunhongfu/scripts-master | stackup.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/stackup.m | 1,652 | utf_8 | cb32cb88cf030cac059a98ae7524b920 | function ss = stackup(varargin)
%|function ss = stackup(x1, x2, ...)
%|
%| stack up 2D arrays to make 3D array
%| or stack up 3D arrays to make 4D array
%| This generalizes how [a; b] "stacks up" 1D vectors to make a 2D array.
%| This is useful in conjunction with stackpick().
%| It is akin to cat(ndims(x1)+1, x1, x2... |
github | sunhongfu/scripts-master | bspline_1d_synth.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/bspline_1d_synth.m | 7,547 | utf_8 | 22d198ab32dbead6b3027041488ae871 | function ft = bspline_1d_synth(coef, ti, varargin)
%|function ft = bspline_1d_synth(coef, ti, varargin)
%|
%| Given c[n], the b-spline coefficients for the following model:
%| f(t) = \sum_{k=0}^{N-1} coef_k b(t - k),
%| and given sorted sample locations ti, synthesize signal samples f(t_i).
%|
%| in
%| coef [N,(L)] ... |
github | sunhongfu/scripts-master | strum_test.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/strum_test.m | 1,450 | utf_8 | 5f9ccc49384242173e665bfc02436bde | function strum_test
%function strum_test
% test strum object
% Copyright 2006-1-19, Jeff Fessler, University of Michigan
dat.a = 'a';
dat.b = 'b';
h0 = @strum_test_fun0;
h1 = @(st, arg) [st.a arg];
h2 = @(st, arg) sum(arg);
% with comment
st = strum(dat, {'fun0', h0, ''; 'fun1', h1, '(arg)'; 'fun2', h2, '(arg)'})
st... |
github | sunhongfu/scripts-master | highrate_centers.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/highrate_centers.m | 1,973 | utf_8 | fa074a06d856dfb3fc5ae1f1901a054a | function centers = highrate_centers(data, L, M)
%|function centers = highrate_centers(data, L, M)
%| According to high-rate scalar quantization theory (Gersho, T-IT, 1979),
%| the density of MMSE quantization cell centroids should be f^{k/(k+2)},
%| for k-dimensional data distributed with pdf f.
%| This m-file design... |
github | sunhongfu/scripts-master | padn.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/padn.m | 1,336 | utf_8 | 4822bab375497160ba2c475697fec6a7 | function out = padn(mat, newdim)
%|function out = padn(mat, newdim)
%| pad input matrix to newdim, preserving 'center point'
%| todo: replace by matlab's "padarray"
if nargin < 1, help(mfilename), error(mfilename), end
if streq(mat, 'test'), padn_test, return, end
% default: round to next up power of 2
if nargin < ... |
github | sunhongfu/scripts-master | reale.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/reale.m | 1,973 | utf_8 | d7514474903cc0261796237d78f5ae02 | function y = reale(x, arg2, arg3)
%|
%| y = reale(x)
%| y = reale(x, tol)
%| y = reale(x, 'warn', 'message')
%| y = reale(x, 'error')
%| y = reale(x, 'report')
%| y = reale(x, 'prompt')
%| y = reale(x, 'disp')
%|
%| return real part of complex data (with error checking).
%| checks that imaginary part is negligible (or ... |
github | sunhongfu/scripts-master | equivs.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/equivs.m | 1,610 | utf_8 | f9ca1bd1ae3239b4f775ac31f6874f9a | function out = equivs(var1, var2, varargin)
%|function out = equivs(var1, var2, command)
%| verify that var1 and var2 are equivalent to within single precision accuracy
%| if not, print error message. an alternative to isequal().
%| See also: jf_equal
%| option
%| 'thresh' threshold (default: 1e-6)
%| Copyright 2007... |
github | sunhongfu/scripts-master | jf_rm_toolbox.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/private/jf_rm_toolbox.m | 686 | utf_8 | 97251af0ce7418ae4ee9e0a24ae04b72 | function jf_rm_toolbox
% remove matlab toolboxes from path
% for testing my toolbox with vanilla matlab
rm aero
rm aeroblks
rm bioinfo
rm comm
rm commblks
rm compiler
rm control
rm curvefit
rm database
rm des
rm distcomp
rm dspblks
rm eml
rm emlcoder
rm filterdesign
rm finance
rm fixedpoint
rm fuzzy
rm geoweb
rm ident... |
github | sunhongfu/scripts-master | jf_prctile.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/private/jf_prctile.m | 1,066 | utf_8 | 4f9221f4120fbff5aa6add943c5a1ac9 | function y = jf_prctile(pn, x, p, dim)
% mimic matlab's prctile which is in the "stats" toolbox
if streq(x, 'test'), jf_prctile_test, y = []; return, end
if nargin < 3, help(mfilename), error(mfilename), end
% work with permuted dimensions if needed
if nargin > 3 && ~isempty(dim)
order = [dim:ndims(x) 1:dim-1];
x =... |
github | sunhongfu/scripts-master | jf_color_order.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/private/jf_color_order.m | 984 | utf_8 | 009a5177b58c46e4e5ed781f43bdf930 | function out = jf_color_order(pn, varargin)
%function out = jf_color_order(pn, varargin)
% set color order to start with yellow then cyan etc., for black background
if ~length(varargin)
out = jf_color_order_bw;
return
end
out = [];
switch varargin{1}
case 'revert'
set(0, 'DefaultAxesColorOrder', 'default')
retu... |
github | sunhongfu/scripts-master | jf_struct_recurse.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/private/jf_struct_recurse.m | 1,824 | utf_8 | d7849c16991e5a735db1c20c9bfe3a79 | function out = jf_struct_recurse(pn, st, varargin)
%|function out = jf_struct_recurse(pn, st, varargin)
%|
%| Recursively descend a structure and examine its (numeric) members
%|
% Copyright 2010-04-05, Jeff Fessler, University of Michigan
if nargin < 1, help(mfilename), error(mfilename), end
arg.type = 'minmax_nan... |
github | sunhongfu/scripts-master | display.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/@strum/display.m | 1,036 | utf_8 | bf17c2af3d0e12d5ea0fb3c4ae23eeb8 | function display(ob)
%function display(ob)
% "display" method for this class
name = inputname(1);
printm('"%s" is an object of class "%s":', name, class(ob))
ob = struct(ob);
disp(ob)
fnames = fieldnames(ob);
for ii=1:length(fnames)
fname = fnames{ii};
if isstruct(ob.(fname))
printf('%s.%s :', inputname(1), fnam... |
github | sunhongfu/scripts-master | mat_write.m | .m | scripts-master/cs-phase/_src/_NUFFT/utilities/arch/mat_write.m | 2,626 | utf_8 | 51f2b89c210296ee2a33b698ceaa1ab8 | function mat_write(file, data, varargin)
%function mat_write(file, data,
% ['-check', '-nocheck', '-type', datatype, '-name', varname])
%
% Save matlab "data" to "file", first checking if "file" exists!
% If file suffix is .fld, then save as AVS .fld file in xdr_float.
%
% datatype can be 'xdr_float' 'xdr_int' ...
% ... |
github | sunhongfu/scripts-master | fftn_fast.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/fftn_fast.m | 2,536 | utf_8 | 45eea8a7988be9d007556ae10931481b | function Xs = fftn_fast(xs, ns)
%|function Xs = fftn_fast(xs, ns)
%|
%| For some reason, in matlab versions before about 7.4 (R2007a),
%| matlab's fftn routine was suboptimal for the case of 2D FFTs,
%| at least on some machines.
%| The improvement herein was found by Hugo Shi.
%| After 7.4, fftn worked fine so this ... |
github | sunhongfu/scripts-master | nufft_init.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/nufft_init.m | 9,078 | utf_8 | 8404dab6a378286f60e1ec96e8a03af3 | function st = nufft_init(om, Nd, Jd, Kd, varargin)
%|function st = nufft_init(om, Nd, Jd, Kd, [n_shift,] ...)
%|
%| Initialize structure for d-dimension NUFFT using KB interpolator,
%| particularly the interpolation matrix in sparse format.
%| caution: this routine can require a lot of memory!
%| in
%| om [M d] "digi... |
github | sunhongfu/scripts-master | dtft.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/dtft.m | 2,364 | utf_8 | 78368b81b43c5297ff33dc20d9dc0974 | function X = dtft(x, omega, n_shift, useloop)
%|function X = dtft(x, omega, n_shift, useloop)
%| Compute d-dimensional DTFT of signal x at frequency locations omega
%| in
%| x [[Nd] L] signal values
%| omega [M dd] frequency locations (radians)
%| n_shift [dd 1] use [0:N-1]-n_shift (default [0 0])
%| useloop 1 to... |
github | sunhongfu/scripts-master | newfft.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/newfft.m | 18,090 | utf_8 | ebae560263354d06eae466d1a6dd77f9 | function st = newfft(om_in, Nd_in, varargin)
%|function st = newfft(om, Nd, [options])
%|
%| New version of NUFFT (pun intended) that uses real interpolation kernels.
%| (The original NUFFT code used complex interpolation needlessly.)
%|
%| This returns a "strum" object with methods for both forward and adjoint
%| d-... |
github | sunhongfu/scripts-master | kaiser_bessel.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/kaiser_bessel.m | 4,245 | utf_8 | eb663e2f74fb509c947663fb2c6d4b88 | function [kb, alpha, kb_m] = kaiser_bessel(x, J, alpha, kb_m, K_N)
%|function [kb, alpha, kb_m] = kaiser_bessel(x, J, alpha, kb_m)
%|function [kb, alpha, kb_m] = kaiser_bessel(x, J, 'best', 0, K_N)
%|
%| generalized Kaiser-Bessel function for x in support [-J/2,J/2]
%| shape parameter "alpha" (default 2.34 J)
%| orde... |
github | sunhongfu/scripts-master | kaiser_bessel_xray.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/kaiser_bessel_xray.m | 2,169 | utf_8 | 5d1893ab2d3217a9310948fe67ff7453 | function [proj, J, alpha, kb_m, d] = kaiser_bessel_xray(r, J, alpha, kb_m, d)
%function [proj, J, alpha, kb_m, d] = kaiser_bessel_xray(r, J, alpha, kb_m, d)
%
% X-ray transform of generalized Kaiser-Bessel function,
% See (A7) in lewitt:90:mdi, JOSA-A, Oct. 1990.
%
% in
% r [?] radial locations in projection space (un... |
github | sunhongfu/scripts-master | kaiser_bessel_ft.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/kaiser_bessel_ft.m | 2,914 | utf_8 | 13471fc4abc2633a97527aa5e19431f1 | function y = kaiser_bessel_ft(u, J, alpha, kb_m, d)
%function y = kaiser_bessel_ft(u, J, alpha, kb_m, d)
%
% Fourier transform of generalized Kaiser-Bessel function,
% in dimension d (default 1).
% shape parameter "alpha" (default 2.34 J)
% order parameter "kb_m" (default 0)
% See (A3) in lewitt:90:mdi, JOSA-A, Oct. 1... |
github | sunhongfu/scripts-master | ifftn_fast.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/ifftn_fast.m | 2,149 | utf_8 | 3749fee0395f552bc7cf2430bba890df | function ys = ifftn_fast(xs)
%|function ys = ifftn_fast(xs)
%|
%| For some reason, matlab's ifftn routine is suboptimal
%| for the case of 2D FFTs, at least on some machines.
%| The improvement herein was found by Hugo Shi.
%|
%| Note: matlab's ifft() and ifftn() handle an optional second "N" argument in
%| different... |
github | sunhongfu/scripts-master | nufft1_build.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/nufft1_build.m | 6,859 | utf_8 | 1cd441b39294fac147ef52f7458c84b7 | function st = nufft1_build(J, varargin)
%function st = nufft1_build(J, [option])
% Build 1D LS-NUFFT interpolation coefficients by brute force.
%
% in
% J neighborhood size: [-J/2,J/2]
% option
% om [M,1] frequency locations, if not provided build fine table
% N # of signal values (default: 2^8)
% K # of DFT freque... |
github | sunhongfu/scripts-master | nufft_scale.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/nufft_scale.m | 1,781 | utf_8 | 478adbf2f70bd98ff5d978defd79cdda | function sn = nufft_scale(Nd, Kd, alpha, beta, Nmid)
%function sn = nufft_scale(Nd, Kd, alpha, beta, Nmid)
% Compute scaling factors for NUFFT
% in
% Nd,Kd
% alpha {d}
% beta {d}
% option
% Nmid [d] midpoint: floor(Nd/2) or default (Nd-1)/2
% out
% sn [[Nd]] scaling factors
%
% Copyright 2004-7-8, Jeff Fessler, The ... |
github | sunhongfu/scripts-master | nufft_sinc.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/nufft_sinc.m | 695 | utf_8 | e6857ad90712d847152c31e539b33d09 | function y = nufft_sinc(x)
%|function y = nufft_sinc(x)
%|
%| my version of "sinc" function, because matlab's sinc() is in a toolbox
%|
%| Copyright 2001-12-8, Jeff Fessler, University of Michigan
if nargin < 1, help(mfilename), error(mfilename), end
if streq(x, 'test'), nufft_sinc_test, return, end
iz = find(x == ... |
github | sunhongfu/scripts-master | nufft_diric.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/nufft_diric.m | 1,999 | utf_8 | 271ee48427961a368e4e0f64f481e0c1 | function f = nufft_diric(k, N, K, use_true_diric)
%|function f = nufft_diric(k, N, K, use_true_diric)
%|
%| "regular fourier" Dirichlet-function WITHOUT phase
%| nufft_diric(t) = sin(pi N t / K) / ( N * sin(pi t / K) )
%| \approx sinc(t / (K/N))
%|
%| caution: matlab's version is different: sin(N * x / 2) / (N * sin... |
github | sunhongfu/scripts-master | dtft_adj.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/dtft_adj.m | 2,511 | utf_8 | 6c948619bad55598699158ec924d0363 | function x = dtft_adj(X, omega, Nd, n_shift, useloop)
%|function x = dtft_adj(X, omega, Nd, n_shift, useloop)
%| Compute adjoint of d-dim DTFT for spectrum X at frequency locations omega
%| in
%| X [M L] dD DTFT values
%| omega [M d] frequency locations (radians)
%| n_shift [d 1] use [0:N-1]-n_shift (default [0 ..... |
github | sunhongfu/scripts-master | interp1_table1_import.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/table/interp1_table1_import.m | 413 | utf_8 | 0e4818f872ba8ea210db56495b187e58 | function interp1_table1_import
libname = 'interp1_table1.a';
type11r = ['double[K1] r_ck, double[K1] i_ck, int32 K1, ' ...
'double[J1*L1+1] r_h1, int32 J1, int32 L1, ' ...
'double[M] p_tm, int32 M, double[M] &r_fm, double[M] &i_fm'];
myimport(libname, 'interp1_table1_real_per', 'void', type11r);
function myimport... |
github | sunhongfu/scripts-master | nufft_interp_zn.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/private/nufft_interp_zn.m | 2,194 | utf_8 | 19b50f0ee43faa6a8824265f0516a25a | function zn = nufft_interp_zn(alist, N, J, K, func, Nmid)
%|function zn = nufft_interp_zn(alist, N, J, K, func, Nmid)
%| compute the "zn" terms for a conventional "shift-invariant" interpolator
%| as described in T-SP paper. needed for error analysis and for user-
%| defined kernels since i don't provide a means to ... |
github | sunhongfu/scripts-master | newfft_approx_for.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/private/newfft_approx_for.m | 1,794 | utf_8 | 9f6f995e5bc3c9e4502d112ffc5c7b8c | function X = newfft_approx_for(st, x, om)
%|function X = newfft_approx_for(st, x, om)
%| (approximate) forward NUFFT
Nd = st.Nd;
Kd = st.Kd;
dims = size(x);
dd = length(Nd);
if ndims(x) < dd, error 'input signal has too few dimensions', end
if any(dims(1:dd) ~= Nd), error 'input signal has wrong size', end
%
% th... |
github | sunhongfu/scripts-master | newfft_table_init.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/private/newfft_table_init.m | 5,809 | utf_8 | 7d5daa487f47227d1e7c4f7aa4d09e1f | function st = newfft_table_init(st, varargin)
%|function st = newfft_table_init(st, varargin)
%|
%| Initialize structure for d-dimension NUFFT using table-based interpolator,
%| This should be called only by newfft for its 'table0' or 'table1' mode!
%| Note: default oversample factor is 2^11 or 2^13
%|
%| in
%| st s... |
github | sunhongfu/scripts-master | nufft_offset.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/private/nufft_offset.m | 1,160 | utf_8 | 484e73add0ea3fc089c87836e367f318 | function k0 = nufft_offset(om, J, K)
%|function k0 = nufft_offset(om, J, K)
%| offset for NUFFT
%| in
%| om [M,1] omega (radians), typically in [-pi, pi) (not essential!)
%| J # of neighbors used for NUFFT interpolation
%| K FFT size
%|
%| out
%| k0 [M,1] prepared for mod(k0 + [1:J], K) (+ 1 for matlab)
%|
%| Copyri... |
github | sunhongfu/scripts-master | nufft2_bilinear.m | .m | scripts-master/cs-phase/_src/_NUFFT/nufft/archive/nufft2_bilinear.m | 3,187 | utf_8 | ea5b3bd8bd47648f7f1c97dcfd1dd051 | function X = nufft2_bilinear(omega, x, K1, K2, n_shift)
%function X = nufft2_bilinear(omega, x, K1, K2, n_shift)
% in:
% omega [M 2] frequencies in radians
% x [N1 N2] image dimensions
% J # of neighbors used
% K1,K2 FFT sizes (should be > N1,N2)
% n_shift [2] n = 0-n_shift to N-1-n_shift
% out:
% X [M 1]... |
github | sunhongfu/scripts-master | mtimes_block.m | .m | scripts-master/cs-phase/_src/_NUFFT/@Fatrix/mtimes_block.m | 1,276 | utf_8 | 11f89a7167f3f66a965c297a8620dcd5 | function y = mtimes_block(ob, x, istart, nblock)
%function y = mtimes_block(ob, x, istart, nblock)
% y = G(i'th block) * x or y = G'(i'th block) * x
% in either case the projection data will be "small"
% istart is 1,...,nblock
% support 'exists' option for seeing if this routine is available
if nargin == 2 & ischar(x... |
github | sunhongfu/scripts-master | mtimes.m | .m | scripts-master/cs-phase/_src/_NUFFT/@Fatrix/mtimes.m | 1,374 | utf_8 | b01e213ce10f513c5f91f944f5e7d1f4 | function y = mtimes(ob, x)
%function y = mtimes(ob, x)
% y = M * x or x = M' * y
if ~isa(ob, 'Fatrix')
error 'only multiplication on right is done'
end
if isa(x, 'Fatrix') % object1 * object2, tested in Gcascade
y = Gcascade(ob, x);
return
end
%
% partial multiplication?
%
if ob.is_subref
error 'subref not done'... |
github | sunhongfu/scripts-master | do_cascade.m | .m | scripts-master/cs-phase/_src/_NUFFT/@Fatrix/private/do_cascade.m | 870 | utf_8 | c5e864c129913ce1841a0ce0b0ddacda | function y = do_cascade(cascade, x, is_transpose, istart, nblock, is_before)
%function y = do_cascade(cascade, x, is_transpose, istart, nblock, is_before)
% do cascade * x or cascade' * x
if isempty(cascade)
y = x;
elseif isa(cascade, 'function_handle') | isa(cascade, 'inline')
if nargin(cascade) == 4
y = feval(... |
github | sunhongfu/scripts-master | read_twix_hdr.m | .m | scripts-master/cs-phase/_src/_mapVDVD/read_twix_hdr.m | 5,914 | utf_8 | c62a37e267b68781bba89e01ddf83da4 | function [prot,rstraj] = read_twix_hdr(fid)
% function to read raw data header information from siemens MRI scanners
% (currently VB and VD software versions are supported and tested).
%
% Author: Philipp Ehses (philipp.ehses@tuebingen.mpg.de), Mar/11/2014
nbuffers = fread(fid, 1,'uint32');
prot =... |
github | sunhongfu/scripts-master | mapVBVD.m | .m | scripts-master/cs-phase/_src/_mapVDVD/mapVBVD.m | 34,998 | windows_1250 | 609b42aff0dc8a0c266c8ef4aab4e389 | function twix_obj = mapVBVD(filename,varargin)
% Reads Siemens raw .dat file from VB/VD MRI raw data.
% requires twix_map_obj.m & read_twix_hdr.m
%
%
% Author: Philipp Ehses (philipp.ehses@tuebingen.mpg.de)
%
%
% Philipp Ehses 11.02.07, original version
% [..]
% Philipp Ehses 22.03.11, port to VD11... |
github | sunhongfu/scripts-master | phantom3d.m | .m | scripts-master/YangGao/phantom3d.m | 8,305 | utf_8 | b9b524c7621b925703851eece75cedde | function [p,ellipse]=phantom3d(varargin)
%PHANTOM3D Three-dimensional analogue of MATLAB Shepp-Logan phantom
% P = PHANTOM3D(DEF,N) generates a 3D head phantom that can
% be used to test 3-D reconstruction algorithms.
%
% DEF is a string that specifies the type of head phantom to generate.
% Valid values ar... |
github | sunhongfu/scripts-master | recon_all_data.m | .m | scripts-master/AHEAD/tinaroo/recon_all_data.m | 10,136 | utf_8 | 1f4230494bdf29cdfbe9e994c3e2f0c7 | % recon code for AHEAD sample data
function recon_all_data(sub_no)
curDir = '/QRISdata/Q1041/AHEAD/AHEAD_v2';
cd(curDir)
% for sub_no = 1 : 1 : 105
% load in phase and mag
if sub_no < 51
datafolder = 'part1_v2';
else
datafolder = 'part2_v2';
e... |
github | sunhongfu/scripts-master | phantom_lcurve.m | .m | scripts-master/LN-QSM/phantom_lcurve.m | 4,102 | utf_8 | de2edf5838b6fd782d17c0f8b21a3556 | function [Res_term,TV_term,Tik_term] = phantom_lcurve(mask_tissue, field)
TIKs={'10.0000e-006', '18.3298e-006', '33.5982e-006', '61.5848e-006', '112.8838e-006', '206.9138e-006', '379.2690e-006', '695.1928e-006', '1.2743e-003', '2.3357e-003', '4.2813e-003', '7.8476e-003', '14.3845e-003', '26.3665e-003', '48.3293e-003',... |
github | sunhongfu/scripts-master | normalize_chi.m | .m | scripts-master/LN-QSM/atlas_meas/normalize_chi.m | 4,648 | utf_8 | cf2083aa8bb3fc825f4aabb7179bfe6e | function normalize_chi(seg_dir, chi, refregion)
%seg_dir = [master_dir, subjectID, '/QSM_baseline/', 'seg/'];
[chi_dir, chi_filename, chi_file_ext] = fileparts(chi);
defineMasks;
if (strcmp(refregion, 'dwm'))
chi_dir = [chi_dir, '/chi_dwm_ref'];
if (~exist(chi_dir, 'dir'))
mkdir(chi_dir);
end
... |
github | sunhongfu/scripts-master | tik_qsm_helix.m | .m | scripts-master/HELIX/tik_qsm/tik_qsm_helix.m | 7,399 | utf_8 | b26b1e788eb4ce6b9d6a1c9ca7b455f2 | %Tik-QSM helix script
function tik_qsm_helix(data_path,erosion)
erosion = str2num(erosion);
cd(data_path);
load('all.mat','mask','R','matrix_size','voxel_size','delta_TE','B0_dir','CF','iMag','N_std','iFreq','tfs','vox','dicom_info','z_prjs');
% apply R
mask = mask.*R;
% mask_erosion
r = 1;
[X,Y,Z] = ndgrid(-... |
github | sunhongfu/scripts-master | fast_match.m | .m | scripts-master/MRF/recon/_src/fast_match.m | 2,367 | utf_8 | 0553bffb21a5aba89df9d74900aadc61 | %%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2019 april 23
% New York University School of Medicine, www.cai2r.net
%%-----------------------------------------------------------------------%%
function [ maps, fits ] = fast_m... |
github | sunhongfu/scripts-master | make_mask.m | .m | scripts-master/MRF/recon/_src/make_mask.m | 1,199 | utf_8 | be32180c308123c70236e66645a8f9b9 | %%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2019 March 3
% New York University School of Medicine, www.cai2r.net
%%-----------------------------------------------------------------------%%
function [mask] = make_mask(img, ... |
github | sunhongfu/scripts-master | mrf_match_cpp.m | .m | scripts-master/MRF/recon/_src/mrf_match_cpp.m | 1,329 | utf_8 | 08aa32f48dff6ba7d52f53939d4d4aa0 | % MRF_MATCH_CPP: performs the dictionary matching via a exteral c++ program
%%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2016 Oct 4
% New York University School of Medicine, www.cai2r.net
%%-------------------------------... |
github | sunhongfu/scripts-master | make_im.m | .m | scripts-master/MRF/recon/_src/make_im.m | 1,301 | utf_8 | 4af368d0a66197174fd5090e9cb63fb7 | %%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2019 March 3
% New York University School of Medicine, www.cai2r.net
%%-----------------------------------------------------------------------%%
function [img] = make_im(MrData)
... |
github | sunhongfu/scripts-master | opt_comb.m | .m | scripts-master/MRF/recon/_src/opt_comb.m | 805 | utf_8 | 726066a1c0e3471e0fdf31cc29553ff9 | %%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2019 March 3
% New York University School of Medicine, www.cai2r.net
%%-----------------------------------------------------------------------%%
function [opt_img] = opt_comb(img... |
github | sunhongfu/scripts-master | make_rx.m | .m | scripts-master/MRF/recon/_src/make_rx.m | 2,625 | utf_8 | 11c81b237689886f8c4b3833a00333f2 | %%-----------------------------------------------------------------------%%
% Authors: M.A. Cloos
% Martijn.Cloos@nyumc.org
% Date: 2019 March 3
% New York University School of Medicine, www.cai2r.net
%%-----------------------------------------------------------------------%%
function [I_rx] = make_rx(MrData,... |
github | sunhongfu/scripts-master | mapVBVD.m | .m | scripts-master/MRF/recon/_src/_mapVBVD/mapVBVD.m | 26,600 | utf_8 | a53854086a152c018d77f2e6027b0633 | function twix_obj = mapVBVD(filename,varargin)
% Reads Siemens raw .dat file from VB/VD MRI raw data.
%
% Requires twix_map_obj.m
%
% Author: Philipp Ehses (philipp.ehses@tuebingen.mpg.de)
%
%
% Philipp Ehses 11.02.07, original version
% [..]
% Philipp Ehses 22.03.11, port to VD11
% Felix Breuer 31... |
github | sunhongfu/scripts-master | twix_map_obj.m | .m | scripts-master/MRF/recon/_src/_mapVBVD/twix_map_obj.m | 36,408 | utf_8 | 8ed9b559d38d7c95030609766d195fd5 | classdef twix_map_obj < handle
% class to hold information about raw data from siemens MRI scanners
% (currently VB and VD software versions are supported and tested).
%
% Author: Philipp Ehses (philipp.ehses@tuebingen.mpg.de), Aug/19/2011
%
%
% Modified by Wolf Blecher (wolf.blecher@tuebingen.mpg.de), Apr/26/2012
% A... |
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