Statistical programs

ALL PROGRAMS COME WITH NO WARRENTY WHATSOEVER

SSIZE

Picture of SSIZE interface SSIZE is a small windows-program used to calculate sample sizes for various popular (but simple) statistical designs. The programs uses a normal distribution approximation to calculate sample sizes. The current version of SSIZE (0.1f) can handle the following designs:

SSIZE is free and is guaranteed to do nothing. Download the windows binaries for SSIZE v0.1f. The rutines used in SSIZE are based on some functions I made for S-plus a few years ago. This code has actually become the basis for the sample-size functions in the new version of R.

If someone shows interest, I'll gladly include sample size calculations when looking at proportions as well as using the exact non-central t-distribution for calculating sample sizes.


ASSOTEST

ASSOTEST is a fast windows program to analyze association/independence, compare allele frequencies and test for Hardy-Weinberg equilibrium, when a population of affected and unaffected persons have been genotyped for a diallelic marker. It can be downloaded here. See also the new web-version of assotest found at Ekstrøm & Far.

If you're interested in testing, trying and giving suggestions to the programs, then let me know.


Linkage Disequilibrium estimation v0.1a

Here's a small java applet (to the right) that can estimate the LD between two biallelic markers. All genotyped individuals are assumed independent and that there is no information about their phase.

Note that the applet is not completed finished yet! The printed result is R^2 (also known as Delta^2) with values close to one being an indication of complete linkage disequilibrium. A result of "NaN" indicates that insufficient data is available to estimate LD (i.e., too many cells are zero) while a red result is caused by illegal cell values (e.g., by entering letters).


PEDIPET

PediPet is a *nix program for analyzing genetic marker data, and comes without a fancy GUI interface (or any real documentation). Mostly it's a set of C and C++ files used for some of my calculations

Go to the PEDIPET homepage.


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