Tag Archives: Python

pandas support may be coming in PyPedal 2.1

Posted on December 2, 2011 by jcole

I’ve been experimenting with pandas, a data analysis toolkit that provide an R-like data frame object. I am close to having working code that converts pedigree data into a DataFrame instance, which should make a lot of computations much easier. … Continue reading →

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Update: UniCurses on Windows

Posted on September 29, 2011 by jcole

A quick update to my earlier post about getting UniCurses working on Windows — for some reason, it works as described with Python 3.1, but not 2.5 (I know, I’m a little behind). I’ll get it sorted out one of … Continue reading →

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PyPedal Article Published in Python Magazine

Posted on March 30, 2009 by jcole

The March 2009 issue of Python Magazine is on the news-stands. Guess whose article is mentioned on the cover?

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There’s so much genomic data that we hardly know what to do with it all

Posted on November 7, 2008 by jcole

One of the things that falls out of our genomic evaluation system are breeding values for individual chromosomes for each trait evaluated. For the past few days I’ve been thinking about how to compare the genetic covariance matrices that we … Continue reading →

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Sage Makes Me Happier Than Seems Reasonable

Posted on May 14, 2008 by jcole

I’ve known about the Python-for-mathematics software stack SAGE for a while now, but I hadn’t played with it until today. What happened? I read Vincent Noel’s very good blog entry on replacing Matlab with Python. What I had missed about … Continue reading →

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PyPedal Release Candidate 7 Highlights Need for Unit Testing

Posted on May 8, 2008 by jcole

Many thanks to Matthieu Authier for reporting several bugs, which in turn led to more bugs. The hunt started with broken code in examples/new_amatrix.py, which led to bugs in several subroutines in pyp_nrm, which exposed some small side issues. Notably, … Continue reading →

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This is a Quick Test of the Google Syntax Highlighter for WordPress Plugin

Posted on April 4, 2008 by jcole

I read about the Google Syntax Highlighter for WordPress in a blog entry by Jacob Gube describing several purportedly-useful WordPress extensions. The plugin sounds like just the thing to pretty-up some entries I’m working on about PyPedal. Here’s a simple … Continue reading →

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An Article on PyPedal May Appear in Python Magazine

Posted on March 31, 2008 by jcole

I received this morning an e-mail from the Technical Editor of Python Magazine asking if I’d be interested in writing an article about PyPedal. I hope to talk with with him soon to get more details and see if we … Continue reading →

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PyPedal Release Candidate 3 Features an Inbreeding Bugfix and Refactored Database Handling

Posted on March 28, 2008 by jcole

The third release candidate of PyPedal 2.0 has been released. It includes a minor bugfix to pyp_nrm/inbreeding_vanraden() and a completely-refactored database backend. After a few days of writing, and a false start with SQLAlchemy, I’ve completely rewritten the database backend … Continue reading →

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Installing eric4 and QScintilla2 from source on Kubuntu 7.10

Posted on February 6, 2008 by jcole

I wanted to install eric4 to compare it to KDevelop as an environment for Python development. I could not find any packages for eric4, and in order to install it from source I needed to build and install both QScintilla2 … Continue reading →

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