Abeles - specular Neutron/Xray reflectivity curve simulation

Last changed: 4 weeks 14 hours ago

This XOP generates neutron/Xray specular reflectivity curves from parameters that describe a scattering length density profile at an interface. The XOP is intensively used by the Motofit reflectivity fitting package.

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An interior-point gradient method for large-scale totally nonnegative least squares problems

Last changed: 3 years 38 weeks ago

Igor code for solving NNLS problems, coded using: http://www.caam.rice.edu/~zhang/reports/tr0408.ps (Michael Merritt and Yin Zhang, Technical Report TR04-08, Department of Computational and Applied Mathematics, Rice University, Houston, Texas 77005, U.S.A., May, 2004)

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Automated Cell Tracker

Last changed: 1 year 11 weeks ago

This program will automatically track a user defined object (cells) through a stack of images and output the X and Y pixel coordinates of the object, as well as the distance moved and velocity for each frame of the movie. Two zip files are provided (click "View all releases" to see and download them both). The zip file "Automated Cell tracker" contains three files: Cell Tracker.pxp, CTIPN.ipf and Cell Tracker Instructions.ihf. Before you open the .pxp file, place the .ipf file under the User Procedures file folder and the .ihf file under the Igor Help Files folder.

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Baseline Fitting

Last changed: 5 years 31 weeks ago

A baseline fitting utility for spectral data. Adds some items to the macros, marquee and trace popup menus. Use the all traces (shift-click) popup menu to fit baselines to many traces at once. To use the utility, make a plot of your raw data, initialise the baseline fit, select areas of the data with a marquee and right click for the option to add those regions to a maskwave. You can fit a line, 3rd or 4th order polynomial, Gaussian, Lorentzian or exponential curve or a smoothed spline to the selected regions and subtract the baseline via macro, trace or marquee menus.

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Brownian Motion Simulator

Last changed: 25 weeks 5 days ago

A Procedure File (BM_Simulator.ipf) for simulating a random walk and modeling Brownian Motion. This procedure creates a series of displacements generated after a "particle" experiences a series of random molecular collisions. Each collision moves the particle a distance determined by its mean free path setting. After a defined number of collisions, the particle is at a new, random location and the distance between its starting location and final location is termed a "displacement".

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Carnot pVCalculator

Last changed: 3 years 11 weeks ago

Overview

This package displays a Carnot pV diagram, consisting of isotherms and adiabats. You can change the isotherm temperatures and the separation between adiabats. You can also change the heat capacity ratio (gamma). The graph display updates within the given values of maximum pressure and minimum to maximum pressure. The work done by the system (clockwise cycle) is also displayed.

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Chemical Bonding Curves Demo

Last changed: 1 year 32 weeks ago

Overview

This demonstration experiment shows the shapes of curves for potential energy and force for seven expressions commonly used in chemical bonding. They include ionic, Born-Mayer, Mie, Morse, Buckingham, Lennard-Jones 6-12, and Hooke's Law. The potential is in a dimensionless form of U/Uo versus distance as r/ro, where Uo is the potential at equilibrium distance ro. Force is dimensionless by its maximum value Fmax.

Features

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ColorScaleSliders

Last changed: 36 weeks 21 hours ago

ColorScaleSliders includes a single procedure file that lets you adjust the color scaling of false-color image plots using sliders. By combining smooth adjustments with immediate feedback, this helps you optimize the appearance of false-color plots, and allows you to find fine details.

ColorScaleSliders also includes a similar slider-driven approach to combining up to three different images into a single RGB image. A potential use could be the visualization of multicolor fluorescence data.

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DAQ Procedures

Last changed: 1 year 24 weeks ago

Procedure files to help simplify data acquisition (DAQ) in Igor Pro. Includes separate files for GPIB, NIDAQmx, traditional NIDAQ, serial port, and VISA. Each file contains its own documentation.

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Dependency Analyzer

Last changed: 5 years 8 weeks ago

This package will allow you to determine which Igor procedure files require which other Igor procedure files to operate. You can select any subsets of your loaded procedure files as "callers" and "callees" and get a graphical display of dependencies. It also shows you which functions in procedure file A call functions in procedure file B. This is useful for identifying which sets of procedure files must go together, and for identifying cyclic dependencies that you may want to avoid.

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Drag and Drop Traces

Last changed: 3 years 5 weeks ago

This adds a menu option that, when activated, allows you to drag traces from one graph to another.

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DynamiTabs

Last changed: 4 years 14 weeks ago

An alternative approach to tab control, in part inspired by the Wavemetrics "Extensible Tab Panel Demo" experiment. This approach is used in the Time-Frequency Tookit package.

The impetus for this approach was to get rid of the cumbersome need to keep some sort of database of controls, or to name controls in a particular way, that can make updating controls in a tabbed control panel tedious. The tradeoff is that all control states must be continuously saved in global variables - something that is often desirable in a package complex enough to require tabs anyway.

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Easy New Notebook

Last changed: 2 years 32 weeks ago

This provides a hook to the New:Notebook menu procedure. The hook puts up a control panel with more settings than the standard New:Notebook dialog box.

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Ellis 2: Complex curve fitting for one independent variable

Last changed: 31 weeks 9 hours ago

Ellis is a curve-fitting package exclusively for fitting complex functions of one independent variable. It has been used extensively in the optimization of electrochemical impedance models including simple Randles cells, Warburg diffusion elements, as well as more complicated models such as transmission lines and the point defect model of passivity.

A library of common impedance circuits are included as well as a nicely-commented template for writing your own.

View a 91-second quickstart video here: http://vimeo.com/43998169

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Expt Procedures

Last changed: 1 year 22 weeks ago

Template with an experiment file and several procedure files to help simplify data acquisition and management in Igor Pro. Includes generic data-taking routines, a convention for identifying data with unique serial numbers, procedure files to simplify data acquisition (see "DAQ Procedures" Project*) with GPIB, NIDAQ, serial port, and VISA, and procedure files to work with a few common SRS lockin amplifiers and Tektronix oscilloscopes. Each file contains its own documentation, and the experiment file contains a "GettingStarted" notebook.

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Fluorophore excitation and emission spectra

Last changed: 29 weeks 2 days ago

The following Igor pxp file includes a panel for plotting the excitation and emission spectra of various fluorophores, including fluorescent chemicals (e.g., FM 1-43) or genetically encoded molecules (e.g., GFP). Includes the ability to overlay filter cube information (currently just FITC/EGFP and TRITC).

Spectra are from Chroma.

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Generalized Linear Model Fitting

Last changed: 28 weeks 8 hours ago

This implements generalized linear models in a function glmfit. Support for unity-link (gaussian distribution), log-link (poisson distribution), and logit-link (binomial distribution), and tan-link (von mises distribution). General usage given in function TestGLMFit, with a log-link (poisson) example. It is best to just contact me directly for support.

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Generic Window Hook

Last changed: 2 years 11 weeks ago

GenericWindowHook.ipf provides
1) a generic window hook function that monitors events, GenericWinHook(), and
2) an installer function, InstallGenericWinHook(), that sets up an exterior panel (dubbed here the "event panel") to show all monitored events.

- Works for any window that can receive events (Graphs, Tables, Layouts, Panels, Notebooks).
- You can simply use the event panel to examine what really happens to your window while developing your own hook function.
- You can also use the GenericWinHook() code as a starting point for own your hook function.

Usage:

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Graphical User Interface Procedures/General Utilities for Igor Programmers

Last changed: 1 week 1 day ago

A collection of utilties for user interface widgets (TabControls, SetVariables, PopMenus, window sizing, etc.) plus some other general utilities for Igor programming.

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HITRAN procedures for Igor

Last changed: 12 weeks 5 days ago

Collection of functions and procedures for loading data from the HITRAN database and simulating optical transmission through the atmosphere as a function of temperature, pressure and gas composition as well as thermal emission.

For more information about the HITRAN database, and to access the data files, go to:
http://www.cfa.harvard.edu/hitran/

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Igor preview generator for OS X

Last changed: 3 weeks 3 days ago

This project will automatically create a preview of a saved Igor experiment by compiling its available windows into a notebook and saving the notebook in a central location and keep track of them with a UUID that matches a generated UUID string stored in the experiment.

The script will list the pxp files in the specified folder (instead of the notebook previews), and when you select one it will access the UUID stored in the pxp and match it to the appropriate preview file (or display "No Preview Available" if a preview has not yet been generated).

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Igor Sequencer for Arduino

Last changed: 6 weeks 2 days ago

Igor Sequencer controls an Arduino device to produce sequences of output pulses in a user-defined sequence. It provides low cost control of up to 12 outputs in two banks of 6 pins with sub-millisecond accuracy. Sequences are programmed through a GUI and they can be saved and loaded for quick recall.

You will need an Arduino Uno or Mega (it will probably work with other Arduino models as well). A sketch is provided which contains the code to install on the Arduino. A manual describing installation and operation is also available for download.

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Interactive Dartboard

Last changed: 4 years 13 weeks ago

The "interactive dartboard" presents a clickable dartboard to the user. The package is intended to illustrate some programming techniques for writing graphical user interfaces: drawing calculated polygons, using Igor's coordinate systems, using "package" data folders, providing visual and sound feedback in response to user clicks by dint of a hook function.

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Joystick XOP

Last changed: 4 years 26 weeks ago

This XOP allows Igor to read and control the inputs and outputs from and to a force feedback joystick. These are relatively inexpensive consumer devices used mainly for playing games, I presume, but can be useful elsewhere (atomic force microscopy?), as they are for my purposes, where a monkey uses the joystick. In general, the idea is to provide a haptic interface within Igor. Of course, there may be a market for Igor gaming. :-)

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KinSim

Last changed: 3 years 16 weeks ago

Generate chemical reaction systems, convert them into integrateODE form, and run the model.

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LabView library to save multidimensional LabView arrays as Igor Binary Waves to disk

Last changed: 2 years 31 weeks ago

This LabView library stores LabView arrays as Igor Binary Waves to disk. It uses always Igor Binary Wave file version 5.

Details

• supports arrays with 1 to 4 dimensions
• handles arrays of
  • signed and unsigned byte
  • signed and unsigned word
  • signed and unsigned long
  • real and complex single precision floating point
  • real and complex double precision floating point
  • text
• supports assignment of a dependency formula
• supports dimension labels
• supports adding a wave note
• supports dimension scaling and dimension units
• supports data scaling and data unit

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LaTeXinIGOR

Last changed: 5 years 31 weeks ago

LaTeXinIGOR is an IGOR PRO procedure for those Igor 6 users in Windows who want to embed a LaTeX expression in their graphs, panels, layouts or notebooks. The expression is loaded as an Igor picture from an Enhanced Meta File image (EMF) generated by the program pstoedit, that converts the postscript output of the program LaTeX into a vectorial graph, or alternatively, from an Encapsulated PostScript (EPS) with a TIFF preview added by the program epstool (new in version 2.0).

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Line Scan Analysis

Last changed: 5 weeks 6 days ago

A procedure for generating kinetic profiles from analysis of intensity values from confocal line scans.
Sequential line scans are imported into 2D waves from either TIFF or Zeiss LSM* files.

Analysis options include:

• choice of statistical test run on line scan data
• ability to set inter-line scan-interval
• stat values output to data table
• creation of a graph and curve fit options

Running "Line Scan Analysis" from the Macros menu creates a panel (see screenshot).

LinkVS

Last changed: 1 year 20 weeks ago

Overview

LogBook

Last changed: 1 year 33 weeks ago

Overview

Lumencor SOLA light driver Panel

Last changed: 40 weeks 5 days ago

The following procedure creates a small, simple panel for controlling a Lumencor SOLA light driver:
http://lumencor.com/product/sola-light-engine/

MATLAB Functions

Last changed: 2 years 41 weeks ago

The biggest barrier to Igor adoption is usually knowledge of another environment's language. One of these is MATLAB. If a MATLAB users sits down to write Igor code, sometimes they have a hard time figuring out what the equivalent function in Igor is the function they know in MATLAB. And even if they find that function, if they haven't programmed in Igor, they might get stuck on the syntax.

Maximum Entropy Fitting package

Last changed: 4 years 49 weeks ago

This is Maximum Entropy Package for solving problems which can be written as linear equation: I = G f, where I is measured signal, G is response matrix and f is a model distribution. It has been used for interpretation of a size distribution from small-angle scattering data, which involves the inversion of an integral equation for which there is no exact solution. It can likely be used for number of similar problems.

Multilevel Thresholding

Last changed: 3 years 16 weeks ago

This is a first rough try at implementing "A fast multilevel thresholding algorithm" by Liao, Chen, and Chung, which is based on a "maximized between-class variance" criterion originally due to N. Otsu (IEEE Trans System Man Cybernetics, 1979).

Multiple file loader front end

Last changed: 3 years 8 weeks ago

A small panel is presented to the user for loading multiple files into an Igor experiment. This panel gives the user the ability to navigate to the disk folder containing files to load. A listbox is then updated to show a list of files in that folder. The shift key can be used to define contiguous groups of files and the control key (Win) or command key (Mac) can be used to select and deselect individual files in the listbox. Finally a button "GetFiles" is used to end file selection and initiate further code exection. The panel code stores its waves in its own subfolder.

NeuralynxLoader

Last changed: 3 years 2 weeks ago

NeuralynxLoader loads individual Neuralynx files or entire folders containing Neuralynx files into Igor.

NeuroShare File Loader

Last changed: 3 years 10 weeks ago

The NeuroShare XOP is an XOP for loading files from vendors that comply with the NeuroShare API standard (neuroshare.org). This version of NeuroShare requires Igor Pro 5.00 or later.
The NeuroShare XOP adds the following to Igor:
A menu item in the Load Waves submenu (not yet implemented).
Two command line operations.
This help file.
Help in the Igor Help Browser Command Help pane.
LoadNSData behaves much like Igor's built in LoadData operation except that it loads files via NeuroShare compliant APIs.
Filter provides basic digital filtering.

NRFit

Last changed: 1 year 29 weeks ago

Neutron and X-ray reflectivity analysis package:

Package Tools

Last changed: 1 year 24 weeks ago

Overview

pFLIM - an analysis program for time-domain fluorescence lifetime imaging microscopy (FLIM) data

Last changed: 32 weeks 5 days ago

We have developed a highly accurate and efficient code for the analysis of time-domain FLIM data (‘‘pFLIM’’ for precision FLIM). Our analysis code accounts for all significant instrumental artifacts (e.g., the instrument response function (IRF) and spatially inhomogeneous background events) and is rigorously based on both conventional and novel statistics. The code is described in detail in the manuscript:

Photoemission pair fitting

Last changed: 5 years 31 weeks ago

A very old, as-is, you are on your own, your milage may vary version of multi-peak fitting for special voigt pairs that occur in photoemission work.

Planck Distribution Plot

Last changed: 2 years 14 weeks ago

Overview

Progress Meter

Last changed: 6 weeks 6 days ago

//*****************************************************************
// Function ProgressMeter routines
//*****************************************************************
// Routines to create, update and destroy a little progress meter. This uses
// igor drawing commands in a panel. Data is normalized to a 0 to 100 unit
// scale and meter is updated every 5 units (20 increments).
// Truncates name to 40 characters and ensures that name is igor legal. Always
// use return value (string) from ProgressMeterCreate as MeterName parameter

RatioImg

Last changed: 5 years 26 weeks ago

The RatioImg procedures are a set of Igor procedure files which provide convenient data loading, browsing, annotation, and measurement of ratiometric imaging experiments. They were written in 1999 by Howard Rodstein at WaveMetrics and Mark N. Rand at the Department of Neurology, University of Washington, Seattle using Igor Pro 3.1. Minor updates were made in 2007 to work with Igor Pro 6.

Screen Sizer

Last changed: 2 years 32 weeks ago

This module will generate a set of globals containing the current screen size in pixels and points. It also contains functions to move, shift, or size any type of window or set of window types/kinds using percentage of screen/frame values.

Semi-Automated Routines for Functional Image Analysis (SARFIA)

Last changed: 2 years 20 weeks ago

SARFIA has been developed for the analysis of functional fluorescence data, for instance recordings from cells labeled with fluorescent calcium indicators. However, it allows access to a variety of inbuilt and custom-written image processing functions.

SFL: All Core Packages

Last changed: 4 years 3 weeks ago

Overview

SFL: Delimited Text

Last changed: 4 years 45 weeks ago

This is a STANDARDIZED FILE LOADER to read delimited text files.

SFL: IR Data

Last changed: 4 years 43 weeks ago

Overview

SFL: SpectraMax files

Last changed: 3 years 49 weeks ago

This is a STANDARDIZED FILE LOADER to load SpectraMax files.

SFL: XML

Last changed: 4 years 3 weeks ago

This is a STANDARDIZED FILE LOADER for reading XML data-type file into Igor Pro according to rules in a user-generated XSL file.

Size Distribution Fitting (lognormal) - Wdie-Range Particle Sizer (WPS) Data Processing

Last changed: 1 year 9 weeks ago

This igor procedure is to handle the airborne particle size distribution data measured using Wdie-Range Particle Sizer (WPS), since the original software provided along with the instrument is not very user-friendly.

Smith Chart and Vector Network Analyzer Support

Last changed: 5 years 19 weeks ago

Displays data typically obtained from vector network analyzers (VNAs), such as the HP 8753 and 8510, in Smith chart form. Computations and a nice "RF engineer-friendly" cursor readout are incorporated into the Smith chart. Also displays various computed parameters vesus frequency, such as complex impedance and return loss. Instructions are contained in the Notebook, and the experiment comes up ready to accept data.

SOCKIT - a TCP/IP client for speaking and listening to network sockets using IGOR Pro

Last changed: 8 weeks 1 day ago

SOCKIT provides TCP/IP (IPv4/IPv6) network socket communication between a server and IGOR Pro (the client).

SpXZeigR - Graphing for Chemical Spectroscopies

Last changed: 4 years 3 weeks ago

This package is being designed to display and manipulate wave data, primarily from chemical spectroscopies, in an efficient and intuitive manner.

Synchronized Windows

Last changed: 2 years 9 weeks ago

Igor supports exterior panels that stick to the target window, but only for graphs and panels.
SyncWin extends this idea to any pair of target windows (also tables, layouts, notebooks).
To use, create two windows and install the link between them using SyncWinInstall().
The following examples are also given in the procedure file.

string myGraph = "MyOtherGraph"
Display /N=$myGraph /W=(300,90,500,190)
Display /N=MyFirstGraph /W=(350,100,550,200)
SyncWinInstall(myGraph)

string myPanel = "Panel0", myTable = "Table0"

syntax highlighting for gtksourceview for editors like gedit or meld

Last changed: 7 weeks 6 days ago

This set of files allows you to get syntax highlighting in gedit (http://en.wikipedia.org/wiki/Gedit) or meld (http://en.wikipedia.org/wiki/Meld_%28software%29). These editors are crossplatform (windows, mac, linux) and open source.
This allows to compensate for some missing features of the native igor editor, namely:

Tango for Igor Pro

Last changed: 27 weeks 3 days ago

TANGO is an object oriented distributed control system being actively developed as a collaborative effort between several synchrotron institutes. The object model in TANGO supports methods, attributes and properties. In TANGO all objects are representations of devices. The devices can run on the same computer or distributed over computers interconnected by a network. The network communication is based on CORBA & ZMQ. Communication can be synchronous, asynchronous or event driven. Configuration data is stored in a database.

Tidy Screen

Last changed: 2 years 32 weeks ago

Overview

Tone Generator for Audio Output

Last changed: 23 weeks 6 days ago

This is a procedure file that creates a panel for controlling generation of an audio tone (played out of the computer speakers or headphone jack).
Users can define frequency, duration, and whether the tone is repeated (as well as the delay between consecutive tones).

Touchstone File Loader

Last changed: 5 years 26 weeks ago

Touchstone is a file format for storing n-port parameter data such as is used in radio frequency engineering. Touchstone was originally defined by Agilent Corporation. As of this writing, a draft Touchstone specification can be found at:

Unit Testing Framework

Last changed: 12 weeks 17 hours ago

This project aims at providing a complete set of tools for programmers for writing and maintaining unit tests.

User Function Profiling

Last changed: 1 year 22 weeks ago

The procedure file in this project will be in the WaveMetrics Procedures folder in 6.23 and provides a means of finding the bottlenecks in your user Function code. Until 6.23 is released, if you currently have a version of 6.20, you can try it out by downloading the most recent build of Igor here:
http://www.wavemetrics.net/Downloads/latest/

Wavelet correlations

Last changed: 5 years 26 weeks ago

This module performs correlations on a set of wave pairs. The waves represent instances of stimulus/response pairs, and the result is an estimate of the linear transformation ("kernel") between stimulus and response.

Window Desktops

Last changed: 1 year 42 weeks ago

The purpose of this package is to make it easy to create virtual desktops within Igor Pro. Windows can be assigned to specific desktops, and only windows assigned to the desktop that is currently selected will be displayed. This makes keeping tracking of lots of windows easier, as similar windows can be assigned to the same virtual desktop.

XML Note Tools

Last changed: 4 years 45 weeks ago

This package provides a set of commands that allow one to output text in XML format to the history, a text string, a wave note, or a notebook. It also provides a panel that allows easy XML formatting into a notebook.

XOP function stub generator

Last changed: 2 years 4 weeks ago

From a specially crafted C header file, this Perl script can generate all necessary (resource file, header, and function) stubs for creating a XOP.
See the file example-header.h for an example input file, the output is in the files functionBodys.cpp, functionBodys.h, resourceFile.rc.
Requirements: A recent version of Perl and ctags from http://ctags.sourceforge.net/.
Call the script as ./xop-stub-generator.pl example-header.h.

XRD Calculator

Last changed: 3 years 23 weeks ago

Overview