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updated 2 days ago

Cross Section Isosurface by Evan

easily plot and color 3D data (3d, data exploration, figure)

CrossSectionIsosurface(density3D, varargin)

testCrossSectionIsosurface

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updated 14 days ago

App Builder for SimBiology Models by Asawari Samant

Tool to automate the process of creating standalone, model-exploration apps for SimBiology model (simbiology, pkpd, systems biology)

buildApp(inputSet, compileFlag)

createSlider(f, pNum, pInfo)

createUI(model, appName)

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updated 16 days ago

Flexible and Fast Spike Raster Plotting by Jeffrey Chiou

Plots spike rasters from spike times or binary trains. Faster than most implementations. (biotech, data exploration, neuroscience)

plotSpikeRaster(spikes,varargin)

testSpikeRasterPlotting.m

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updated 24 days ago

Active geometric shape models by Quan Wang

The active geometric shape model is a novel approach for fitting a geometric shape in images. (image processing, mathematics, optimization)

AGSM Canvas

DD=myspline(D,theta)

GI=gaussianBlur(I,s)

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updated 1 month ago

Decision Tree and Decision Forest by Quan Wang

This software implements decision tree/forest classifier in C++/MEX. (image processing, pattern recognition, machine learning)

TrainDecisionForest(X,Y,forestPath,forestSize,depth,noc)

[Y,P]=RunDecisionForest(X,forestPath)

demo.m

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updated 3 months ago

TEC-Controller by Mario Tuerschmann

TEC-Controller plug-in - controls your TEC with a temperature accuracy of 0.001 K (tec, pletier, laser)

TecController

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updated 3 months ago

Preclinical PKPD modeling by Peter Gennemark

Classes for fundamental PKPD modeling in drug discovery (no support for a NLME modeling). (biotech, simulation, medical)

example_fit_ev_iv()

example_fit_inf()

example_readExcel_PKPD_writePowerPoint()

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updated 4 months ago

FCS data reader by Laszlo Balkay

Read FCS 2.0 and FCS 3.0 format flow cytometry files (biotech, pharmaceutical, flow cytometry)

fca_readfcs(filename)

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updated 4 months ago

Fisher’s Exact Test by Michael Boedigheimer

Hypergeometric cumulative distribution (left, right and two-tailed) including permutation testing. (probability, hypergeometric, genetics)

fexact( varargin )

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updated 5 months ago

CODIS by Giuseppe Cardillo

Combined DNA Index System: a GUI tool for forensic paternity lawsuit (gui, biotech)

CODIS(varargin)

CODISINCEST(handles,KC)

CODISswap(a,b,c)

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updated 6 months ago

Convert Gromacs v 4.5 trajectory files into MatLab matrix by Evan

Convert Gromacs trajectory files (.trr) into 3D matrix in matlab. (matlab convert conver..., biotech, simulation)

readGmx2Matlab(coordFile, start_frame, end_frame)

trr2matlab( trajFile, varargin )

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updated 6 months ago

Droplet Video Proccessor - code 1 of 3 by Matthew Moynihan

This code processes video of droplet production and does statistics on each droplet made. (video processing, droplets, biotech)

BWSizerA(videoBlock, dim, fStruct)

BlackOut(Image, rect, BLKrect, val)

findFilterNumA(I, rect)

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updated 7 months ago

goldensection.m by Aamir Alaud Din

Find optimal point of a single variable function using golden section search. (aerospace, automotive, biotech)

goldensection(f,a,b,uncertain)

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updated 7 months ago

fibonacci.m by Aamir Alaud Din

Find optimal point of a unimodal function (optimization, aerospace, automotive)

fibonacci(f,a,b,n)

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updated 7 months ago

dichotomous.m by Aamir Alaud Din

Finds optimal point of a single variable functoin (optimization, aerospace, automotive)

dichotomous(f,a,b,n)

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updated 7 months ago

regulafalsi.m by Aamir Alaud Din

Find root of a single variable function (aerospace, automotive, biotech)

regulafalsi(f,a,b,epsilon)

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updated 7 months ago

secant.m by Aamir Alaud Din

Find the root of an equation using secant's method (aerospace, automotive, biotech)

secant(f,xo,x1,epsilon)

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updated 7 months ago

newton.m by Aamir Alaud Din

Find the root of an equation using newton's method (aerospace, automotive, biotech)

newton(f,g,xo,epsilon)

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updated 7 months ago

Create a 3-Way array from excel files by Aamir Alaud Din

The program reads data from excel files and writes a three way data array (biotech, communications, finance)

prepare4mXLSX

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updated 7 months ago

bisection.m by Aamir Alaud Din

Root finding by bisection method (root, aerospace, automotive)

bisection(f,a,b,epsilon)

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updated 7 months ago

imread for multiple life science image file formats by Christoph Moehl

imports images and metadata using the LOCI Bioformats package (data import, biotech, zvi)

[vol]=imreadBF(datname,zplanes,tframes,channel)

meta=imreadBFmeta(datname)

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updated 9 months ago

read and write CAD Data files using matlab (DX format) by Evan

read and write CAD data in a DX format (bioinformatics, biotech, pdb)

dx2mat(readFile)

mat2dx(DXdata)

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updated 9 months ago

read and write PDB files using matlab by Evan

These two programs accept and output a variety of PDB file-formatted data (bioinformatics, biotech, pdb)

mat2pdb(input)

pdb2mat(readFile)

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updated 9 months ago

Flow Cytometry Data Reader and Visualization by Robert Henson

Flow Cytometry Data Reader and Visualization Example (biotech, pharmaceutical, flow)

Flow Cytometry Data Reader and Plotting Example

dscatter(X,Y, varargin)

fcsread(filename)

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updated 9 months ago

writeFCS by Jakub Nedbal

writeFCS creates FCS file specified by Data File Standard for Flow Cytometry (biotech, pharmaceutical, fcs)

writeFCS(fname, DATA, TEXT)

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updated 9 months ago

Radiation Treatment Planning Optimization Toy Example by Haitham Hindi

This program is a stand-alone toy example of radiation treatment planning(RTP) optimization (optimization, distributed, biotech)

Main()

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updated 10 months ago

Easy Sensitivity (Tornado) Plot Function by Richard McCulloch

This function makes a tornado sensitivity plot and returns the sensitivity values. (aerospace, biotech, data export)

TorPlot(data,names,sensitivity,save,fh)

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updated 10 months ago

Glucose/Insulin modeling by DaveA Albers

Modeling of glucose/insulin dynamics (biotech, simulation, medical)

feeding(integration_iterates, I_baseline, time_steps_per_...

feeding(integration_iterates, I_baseline, time_steps_per_...

feeding(integration_iterates, I_baseline, time_steps_per_...

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updated 10 months ago

Nipals algorithm for Principle Component Analysis by Qiaonan Duan

This function is written largely based on nipals function from R chemometrics package. (nipals, principal component a..., pca)

nipals(X,a,it,tol )

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updated 11 months ago

Reading Philips MR Physiolgy logfiles by Paul Groot

ReadPhilipsScanPhysLog.m reads Philips scanphyslog files, which are created by Philips MRI scanners. (mri, philips, physiological)

ReadPhilipsScanPhysLog(filename, channels, skipprep)

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updated 11 months ago

Negative Binomial Regression by Surojit Biswas

NB2 Negative-Binomial regression. (statistics, mathematics, optimization)

nbreg( x, y, varargin )

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updated 11 months ago

MPCC Solution of Genetic Regulatory Circuit Design Problems by James Allison

Demonstration of a novel MPCC-based technique for solving gene circuit design problems. (optimization, simulation, biotech)

MPCC_con()

constraint(xd,p)

master_genecircuit()

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updated 12 months ago

Medical Image Processing Toolbox by Alberto Gomez

Classes and functions for N-dimensional medical image processing, inspired by ITK (image processing, data export, data import)

[img info]=read_mhd(filename)

circle3DMesh(c,r,d,varargin)

coneImage(points_axis, points_side, ref_im)

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updated 12 months ago

"April, 2011 Image Processing with MATLAB" webinar demo files by Takuya Otani

MATLAB demo files used in the image processing webinar held on April, 2011 in Japan. (image processing, biotech)

BinaryClose.m

BinaryOpen.m

BinaryOpenClose.m

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updated 1 year ago

SIMULATION OF PULL-IN EFFECT IN MEMS CAPACITOR USING GUI IN MATLAB by piyush kant

near the 2/3rd of total gap between the plates the response of the mems capacitor gets unstable. (mems, capacitor, simulation)

piyush(varargin)

sim1(varargin)

sim2(varargin)

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updated 1 year ago

Four parameters logistic regression - There and back again by Giuseppe Cardillo

Fit data points with a four points logistic regression or interpolate data. (statistics, chemistry, pharmaceutical)

L4Pinv(cf,y)

[cf G]=L4P(x,y,varargin)

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updated 1 year ago

N-Dimensional Trapezoidal integral by Mohammed Sadeq Al-Rawi

See title. (communications, biotech, image processing)

trapezoidal_rule_nd_integral(x, mat, N)

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updated 1 year ago

TACTICS Toolbox by Raz Shimoni

TACTICS is an interactive platform for customized high content bioimaging analysis. (image processing, data exploration, biotech)

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updated 1 year ago

Renin-Angiotensin-System (RAS) model for SimBiology by Sven Mesecke

Provides a SimBiology model implementation of the Renin-Angiotensin-System (simbiology, pkpd, systems biology)

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updated 1 year ago

Continuous Stirred Tank Bioreactor (CSTR) SimBiology model by Sven Mesecke

SimBiology project containing a simple CSTR bioreactor model (simbiology, simbiology model, biotech)

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updated 1 year ago

Linear regression for multiple category data with different slopes for each by Soumya Banerjee

The function does OLS and RMA regression on data that is categorized into two different categories (aerospace, biotech, communications)

regress_plot_twocategories_allslope

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updated 1 year ago

Chronic Lemphocytic Leukemia Cell Segmentation Using Watershed and optimal Thresholding by Emad Mohammed

this work is to segment the cytoplasm and the nucleus of the CLL microscopic blood images (image processing, biotech)

Chronic_Lemphocytic_Leukemia_Cell_Segmentation_Using_Wate...

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updated 1 year ago

Similarity classifier with OWA operators by Pasi Luukka

Toolbox presents vector based classification method which uses similarity measures and OWA operators (classification, fuzzy, biotech)

[Classification_accuracy,p1,m1,classes]=simclass(datalear...

[Mean_accuracy, Variance,p1,m1,Means,Vars,Maxsf,Minsf]=si...

calcfit(data, ideals, y)

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updated 1 year ago

Helical Swimming Simulator by Bruce

Simulates a rigid rotating helix at low Reynolds number. (simulation, physics, biotech)

BuildMatrixRegStokes3D(x,X0,N,N0,d)

ExpFlagellumFullTubeMatrix(Sep,Fila_Radius,Radius,Length,...

F_T_D_RSM(R, a, lambda, L)

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updated 1 year ago

MATLAB Tools for Scientist by Asawari Samant

Files from the webinar: MATLAB Tools for Scientists- Introduction to Data Analysis and Visualization (dose response, data import, gui)

Characterization of Dose-Response Behavior

Dose Response Analysis

DoseResponseFit(varargin)

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updated 1 year ago

Triangular mesh conversion from MATLAB to NASTRAN (ASCII) format and vice versa by Sergey Makarov

Four zipped MATLAB scripts supporting export/import of NASTRAN (ASCII) triangular meshes (triangular mesh, data import, modeling)

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updated 1 year ago

Linear regression with statistics for multiple category data by Soumya Banerjee

This function does linear regression with statistics for multiple category data (OLS and RMA) (aerospace, automotive, biotech)

regress_plot_twocategories

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updated 1 year ago

A GUI for bacterial identification by juntao jia

A GUI for bacterial identification base on PNN and MDS. (biotech, gui, statistics)

annbis.m

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updated 1 year ago

3D image stack viewer by boyexex

Current version only accept gray-scale images. Just format your image stack into a 3D array. (image processing, biotech, demo)

Image_stack_viewer( im_stack )

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updated 1 year ago

Spectra gram by Yucheng Wang

well released code for printing spectra gram (biotech)

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