Packages: Analysis
Packages include individual Igor procedure files or collections of Igor procedure files that are related, as well as external operations (XOPs). To browse ALL projects (including those that have not been officially released) click on the Advanced Browse link above.
Clementine, package for modeling decay kinetics using MEM and Least square fitting
Last changed: 1 year 46 weeks ago
Clementine was developed to model decay kinetics processes using either maximum entropy (MEM, included) or least square fitting. The math of analysis (decay times are "tau") is :
MEM: signal(time) = FlatOffset + sum (P(Tau) * exp(- time/tau))
LSQF: signal(time) = FlatOffset + sum (P(Tau) * exp(- (time+TimeShift)/tau))
The package will :
MEM : Generate the distribution of P(Tau) values using Maximum Entropy method over user defined number of bins in tau (log-spaced)
LSQF : Model (and least square fit) sum of for up to 5 different P(tau), TimeShift, and tau combinations. Both P(tau) and tau can be fitted.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.20 | 2011-Jul-07 | Recommended for Igor 6.20.x and above | Help | |
| IGOR.6.03.x-1.1 | 2008-Oct-30 | Recommended for Igor 6.03.x and above | Help | |
DE - optimize with differential evolution
Last changed: 28 weeks 3 days ago
Differential Optimisation - use instead of optimize if that isn't finding the global minimum.
Minimise (or maximise) an energy function by varying independent variables using differential evolution.
Easy peasy to use and comes with an example of how it works.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.x-dev | 2012-Nov-06 | Development snapshot for Igor 6.20.x and above | Help | |
Easy Multithreading
Last changed: 3 years 11 weeks ago
This project contains a library of functions designed to make multithreading in Igor easy. Furthermore, it allow you to use your existing functions, with little or no modification, in multithreaded data analysis, greatly increasing throughput.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.x-dev | 2010-Mar-08 | Development snapshot for Igor 6.20.x and above | Help | |
Generalized Linear Model Fitting
Last changed: 28 weeks 1 day 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.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.30.x-1.0 | 2012-Nov-07 | Recommended for Igor 6.30.x and above | Help | |
Generalized Spike Sorting Explorations
Last changed: 3 years 42 weeks ago
This is a set of two procedures that extract spike waveforms from raw electrode traces and then perform principal component analysis and clustering on the extracted waveforms. The resulting classified spike times and spike shapes are displayed along with a rotatble Gizmo scatter plot of the first 3 principal components. This is a very early version and is likely full of bugs and inefficiencies.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.00.x-0.9-alpha | 2009-Aug-03 | Recommended for Igor 6.00.x and above | Help | |
HITRAN procedures for Igor
Last changed: 13 weeks 12 hours 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/
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.1 | 2013-Feb-21 | Recommended for Igor 6.20.x and above | Help | |
KinSim
Last changed: 3 years 16 weeks ago
Generate chemical reaction systems, convert them into integrateODE form, and run the model.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.10.x-1.0-0 | 2010-Jan-27 | Recommended for Igor 6.10.x and above | Help | |
Line Broadening
Last changed: 13 weeks 12 hours ago
Procedure File containing functions (and wrapper procedures with Menu calls) for convolving waveform data with standard spectroscopic peak shapes (Gaussian, Lorentzian and Voigt) with x-scaling awareness and preservation of integral normalization.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.1 | 2013-Feb-21 | Recommended for Igor 6.20.x and above | Help | |
Line Scan Analysis
Last changed: 6 weeks 1 day 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).
(* requires the LSMreader.pxp written by Stephen R Ikeda
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.30.x-2.1 | 2013-Apr-11 | Recommended for Igor 6.30.x and above | Help | |
Localizer - localization microscopy toolkit
Last changed: 46 weeks 1 day ago
NOTE: binaries for Localizer can now be downloaded from http://sushi.chem.kuleuven.be/svn/Localizer. The source code is available at https://bitbucket.org/pdedecker/localizer.
Localizer provides a full package for performing localization and fluctuation analysis in superresolution fluorescence microscopy (PALM, STORM, SOFI, pcSOFI). The package comes in two parts, an XOP that is responsible for performing fast and efficient calculations, and an Igor procedure that provides a graphical front-end.
The XOP includes operations for a full analysis, including:
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.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-0.x-dev | 2010-Aug-05 | Development snapshot for Igor 6.20.x and above | Help | |
Maximum Entropy Fitting package
Last changed: 4 years 50 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.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.02.x-1.0 | 2008-Jun-09 | Recommended for Igor 6.02.x and above | Help | |
Microtubule Life History Analysis Package
Last changed: 2 years 35 weeks ago
Few procedures/functions to track and/or analyze dynamic microtubules.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-3.1-noRTMII | 2010-Sep-20 | Recommended for Igor 6.20.x and above | Help | |
NRFit
Last changed: 1 year 29 weeks ago
Neutron and X-ray reflectivity analysis package:
Installation:
Downloads:
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.10.x-6.1-MAC | 2011-Oct-28 | Recommended for Igor 6.10.x and above | Help | |
| IGOR.6.00.x-6.10-WIN | 2011-Oct-30 | Recommended for Igor 6.00.x and above | Help | |
pFLIM - an analysis program for time-domain fluorescence lifetime imaging microscopy (FLIM) data
Last changed: 33 weeks 7 hours 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:
Precise measurement of protein interacting fractions with fluorescence lifetime imaging microscopy, Walther et al., Mol. BioSyst., (2011), DOI: 10.1039/c0mb00132e
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-1.12 | 2011-Mar-03 | Recommended for Igor 6.20.x and above | Help | |
RatioImg
Last changed: 5 years 27 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.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.5.00.x-1.1.x-dev | 2007-Nov-17 | Development snapshot for Igor 5.00.x and above | Help | |
Singular Spectrums Analysis
Last changed: 5 years 29 weeks ago
Procedures and a GUI for singular spectrums analysis. These procedure files implement the Monte Carlo SSA algorithm described in Allen and Smith, 1996. The code is in need of a major overhaul, but it works. The overhaul will be coming soon.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.00.x-0.1.0-old | 2007-Oct-29 | Recommended for Igor 6.00.x and above | Help | |
Size Distribution Fitting (lognormal) - Wdie-Range Particle Sizer (WPS) Data Processing
Last changed: 1 year 10 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.
Starting with a neatly organized panel, all functions are simple and straightforward:
- Load raw data with a single click;
- Automatically obtain major parameters (RH, temperature) and calculate the hourly average; (daily or monthly average will be added in future release)
- Graphing (size distribution, color-coded by number conc.);
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.20.x-2.0 | 2012-Mar-15 | Recommended for Igor 6.20.x and above | Help | |
SpAcAn: Spontaneous Activity Analysis
Last changed: 1 year 32 weeks ago
SpAcAn (Spontaneous Activity Analysis) is a collection if IGOR Pro functions for the detection and analysis of spontaneously occuring (non-triggered) events in electrophysiological recordings. SpAcAn was originally designed to facilitate the analysis of spontaneous synaptic activity in whole-cell recordings, but has also been used successfully to detect and analyze spikes or rapid changes in fluorescence.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.5.05.x-1.06 | 2011-Oct-07 | Recommended for Igor 5.05.x and above | Help | |
| IGOR.5.03.x-1.03-2 | 2010-Mar-20 | Recommended for Igor 5.03.x and above | Help | |
Time-Frequency Toolkit
Last changed: 4 years 45 weeks ago
Graphical user interface for time-frequency decomposition of a signal. Future development will include multiple GUIs for time series manipulation and analysis - hence the "Toolkit" designation.
Features:
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.10.x-1.x-dev | 2008-Jul-10 | Development snapshot for Igor 6.10.x and above | Help | |
| IGOR.6.03.x-1.00 | 2008-Feb-07 | Recommended for Igor 6.03.x and above | Help | |
| IGOR.6.02.x-1.04 | 2008-Feb-22 | Recommended for Igor 6.02.x and above | Help | |
| IGOR.6.00.x-0.2.2-beta | 2007-Nov-13 | Recommended for Igor 6.00.x and above | Help | |
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.
| Version | Date | Links | Status | |
|---|---|---|---|---|
| IGOR.6.03.x-1.0 | 2007-Nov-18 | Recommended for Igor 6.03.x and above | Help | |
| IGOR.6.02.x-0.2 | 2007-Oct-17 | Recommended for Igor 6.02.x and above | Help | |
| IGOR.6.00.x-0.4 | 2007-Oct-23 | Recommended for Igor 6.00.x and above | Help | |
