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updated 6 days 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 16 days ago

MArray by junbai wang

MArray: analysing single, replicated or reversed microarray experiments. (biotech, pharmaceutical, analysis)

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updated 16 days ago

MCGH by junbai wang

Matlab toolbox with graphical interface to analysis DNA microarray-based comparative genomic hybridi (biotech, pharmaceutical, analysis)

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updated 1 month ago

iSignal 3.4 by Tom O'Haver

Interactive smoothing, differentiation, peak sharpening and measurement of time-series signals. (signal processing, data import, chemistry)

[pY,PowerSpectrum]=isignal(DataMatrix,xcenter,xrange,sm,s...

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updated 1 month ago

Graphical User Interface for Solving Ordinary Differential Equations for In-Vitro Infection by Soumya Banerjee

A graphical user interface to solve a set of ordinary differential equations (in-vitro infection) (data import, data export, gui)

odesolver_outline

odecall_eclipse_tcl_jv_local(target,infected1,...

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updated 1 month ago

Wilcoxon rank-sum test and box plots for genes/compounds etc in healthy vs. disease by Soumya Banerjee

Does a Wilcoxon rank-sum test and creates box plot for genes etc in healthy vs. disease individuals (biostatistics, biotech, data import)

wilcoxon_ranksum_boxplot

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updated 1 month ago

t-test and box plots for genes/compounds etc in healthy vs. disease by Soumya Banerjee

Does a t-test and creates box plots for genes/compounds in healthy vs. disease individuals (statistics, biostatistics, biotech)

t_test_boxplot

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updated 1 month ago

healthy_disease_boxplot.zip by Soumya Banerjee

Box plots of measured quantity in healthy vs. disease in two cohorts (statistics, biostatistics, data import)

healthyvsdisease_box_plot_general

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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 5 months ago

RGDS_Practical_Guide by Daniel/Ronald

MATLAB routines for the book: "Development of Innovative Drugs via Modeling with MATLAB". (simulation, pharmaceutical, simulink)

AUC

CTSbasics.m

DDEconst

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updated 11 months ago

Droplet Video Proccessor - code 2 of 3 by Matthew Moynihan

This code takes a video of droplets made in a T-Junction and turns it into a sawtooth signal. (microfluidics, tjunction, emulsions)

BlackOut(Image, rect, BLKrect, val)

Sizer(videoBlock, dim, FilterStruct)

videoInput(vidObj)

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updated 12 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 1 year 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 1 year 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 1 year 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 1 year 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 1 year ago

Mean centering spectrum by reza ha

The process of mean-centering is to calculate the average spectrum of the data set and subtract that (signal processing, pharmaceutical)

mean_centering(Y,X)

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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 almost 2 years 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 almost 2 years ago

Clinical Test Performance by Giuseppe Cardillo

The test calculate the performance of a clinical test based on the Bayes theorem (biotech, pharmaceutical, clinical test perform...)

partest(varargin)

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updated 2 years ago

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

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

L5Pinv(cf,y)

[cf G]=L5P(x,y,varargin)

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updated 2 years ago

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

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

L3Pinv(cf,y)

[cf G]=L3P(x,y,varargin)

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updated 2 years ago

Nuclear Medicine Calculator by Omer Demirkaya

It is a simple decay calculator with most of the nuclear medicine isotopes. (physics, pharmaceutical)

gethalflifeunit(numb)

getisotopehalflife1(isotope)

getisotopephotopeak(isotope)

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updated 2 years ago

a fast method of reading data from PDB files by Evan

This file is a blazingly fast method of reading PDB files (biotech, pharmaceutical, protein data bank)

fastPDBRead(readFile)

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updated 2 years ago

A Graphical User Interface for Solving Delay Differential Equations and doing Local Search by Soumya Banerjee

A GUI for solving a set of delay differential equations (DDEs) and local search for best solutions (biotech, data export, data import)

odesolver_outline

...

dde_auto_fit

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updated 2 years ago

An Efficient Technique for White Blood Cells Nuclei Automatic Segmentation by Mostafa M. A. Mohamed

This code is implementation of an algorithm to segment the nucleus of white blood cells (WBCs) (white blood cells, wbc, image processing)

WBC_SegMadhloom.m

WBC_SegProposed.m

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updated 2 years ago

PCRefficiency by Giuseppe Cardillo

Set the Efficiency of a RT-PCR to use in the relative quantification of transcripts. (biotech, pharmaceutical, pcr efficiency)

E=pcreff(ng,cp)

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updated 2 years ago

Monte Carlo Markov Chain for inferring parameters for an Ordinary Differential Equation model by Soumya Banerjee

This function uses a Monte Carlo Markov Chain algorithm to infer parameters for an ODE model (biotech, data export, data import)

mcmc_ode

analyze_mcmc(parallel)

test_gamma()

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updated 2 years ago

Protein Array Tool by Danny Allen

Converts an image of an R&D Systems Proteome Profiler Array into a list of relative protein levels. (image processing, medical, pharmaceutical)

FitProteinArray(ImageType,TemplateFileName, Manual, Image...

FitProteinArrayGUI()

minBoundingBox(X)

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updated 2 years ago

Graphical User Interface for Solving Ordinary Differential Equations by Soumya Banerjee

A Graphical User Interface for Solving Ordinary Differential Equations (Immune Response Model) (data export, data import, gui)

odecall_eclipse_tcl_jv_local(target,infected,...

odesolver_outline(varargin)

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updated almost 3 years ago

gm_wm_contrast by Dave

Calculates contrast between gray matter and white matter of mouse SC MRI Image (image processing, pharmaceutical, medical)

gm_wm_contrast.m

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updated almost 3 years ago

Linear regression on log transformed data by Soumya Banerjee

A function that takes two column vectors and does linear regression on the data (statistics, mathematics, data import)

regress_custom(input_x,input_y,desc,x_label,y_label)

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updated almost 3 years ago

doseResponse by Ritchie Smith

Plots dose/response curve and calculates EC50 and Hill Coefficient. (pharmaceutical, pharmacology, physiology)

[hillCoeff ec50]=doseResponse(dose,response)

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updated almost 4 years ago

Covariance NMR Toolbox by David Snyder

A collection of MATLAB functions implementing common covariance NMR processing methods (chemistry, nmr, biotech)

Plot2DSpec(xppm, yppm, spec_data, spec_axes, init_contour...

apply_mask(X, X_axes, varargin)

covar(varargin)

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updated 4 years ago

DNA MicroArray Image Processing Case Study by Robert Bemis

Case study used in Biomedical and Image Processing seminars (highlights algorithm development). (biotech, pharmaceutical, crop)

Microarray Spot Finding Example

[x,y]=limits(a)

r=range(x)

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updated 4 years ago

MATLAB Programming Example for U2500A USB Modular Data Acquisition (DAQ) module’s Analog Input by Neo

This program sets the USB DAQ module to sample immediately without waiting for a trigger signal (aerospace, automotive, biotech)

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updated 4 years ago

DNAtranslator by Giuseppe Cardillo

Convert a DNA sequence in an amino acids sequence (biotech, pharmaceutical, dna)

ps=DNAtranslator(x)

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updated 4 years ago

HWtest by Giuseppe Cardillo

Test if a locus is under Hardy Weinberg Proportion (biotech, pharmaceutical, hardy weinberg equili...)

pvalue=hwetest(varargin)

hwedemo.m

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updated 4 years ago

MCShape by Brian Schmidt

Multiparticle Tracking algorithm for cell motion and morphology (biotech, pharmaceutical, image processing)

MCShape03.m

Partwobeads.m

Twobeads.avi

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updated almost 5 years ago

Web Deployment Using MATLAB by Todd Flanagan

A web-based gene analysis demonstration using MATLAB Builder for COM (biotech, pharmaceutical, webinar)

applyLogRatio

applyThreshold(threshold)

filterGenes;

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updated 5 years ago

Image Acquisition and Processing with MATLAB® Webinar Files by Alan Hwang

This file contains the demos used in the Image Acquisition and Processing with MATLAB® Webinar. (webinar, matlab, simulink)

BlisterRead(RGB)

Blister_GUI(varargin)

BlisterPackInspection.m

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updated 5 years ago

Flex02-08D Correlator Interface by Marcel Leutenegger

A graphical user interface to the Flex02-08D hardware correlator accessing the Windows driver. (biotech, pharmaceutical, correlator)

export.m

flex02d08.m

flex02dc08.m

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updated 5 years ago

Flex02-01D Correlator Interface by Marcel Leutenegger

A graphical user interface to the Flex02-01D hardware correlator accessing the Windows driver. (biotech, pharmaceutical, correlator)

export.m

flex02d01.m

flex02dc01.m

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updated 5 years ago

CMorph by Brian Schmidt

Tracking algorithm for cell motion and morphology (biotech, pharmaceutical, cell tracking)

CMorph03.m

Parsampleflowgrav050901b1.m

sampleflowgrav3um60X500fps050901b1.avi

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updated 5 years ago

Agilent's USB Modular Scope U2701A and U2702A MATLAB Programming Example by Neo

Shows how instrument connection is made, fetching of captured data and displaying of data (aerospace, automotive, biotech)

U2701xSampleProgram(Auto).m

U2701xSampleProgram(Manual).m

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updated 5 years ago

MATLAB Programming Example for Agilent's U2600A USB Modular (DAQ) Digital IO module by Neo

The U2651A is used as an example here. (aerospace, automotive, biotech)

DIO_Start.m

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updated 5 years ago

MATLAB Programming Example for U2500A USB Modular Data Acquisition (DAQ) module’s Digital IO by Neo

This program sets the USB DAQ module’s first 8 Digital IO ports as digital outputs (aerospace, automotive, biotech)

DIO_PutValue.m

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updated 5 years ago

MATLAB Programming Example for U2500A USB Modular Data Acquisition (DAQ) module’s Analog Output by Neo

Analog output sends out discrete values and the analog input is used to measure that value (aerospace, automotive, biotech)

AO_PutSample_GetSampe.m

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updated 5 years ago

MATLAB Programming Example for U2300A USB Modular Data Acquisition (DAQ) module’s Digital IO by Neo

This program sets the USB DAQ module’s first 16 Digital IO ports to be digital inputs (aerospace, control design, automotive)

DIO_Start.m

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updated 5 years ago

MATLAB Programming Example for U2300A Modular USB Data Acquisition (DAQ) module’s Analog Output by Neo

This program sets the USB DAQ module to output a continuous sine wave. (aerospace, control design, automotive)

AO_RepeatOutput.m

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