What are suffix trees?

Suffix trees are a tree representation of a string and all its suffixes. Consider the string ...

Jug: A Task-Based Parallelization Framework

Merge: Merge two directories without losing files

This small script is used to merge two directories which may overlap in ...

Python Morphology Toolbox

Pymorph is a collection of pure python implementations of many image morphology functions.

Includes basic operations such ...

Python Snippets

Litte bits of code that are cute or otherwise helpful.

Reproducible Research

This is code for reproducing results in some of my published papers:

1. segmentation for the paper Luis Pedro ...

Readmagick

Readmagick is a simple wrapper around ImageMagick's image reading functions.

NGH: NGS (Next Generation Sequencing) in Haskell

Handle NGS data in Haskell using a Conduit based interface.

This is for ...

No Copy Reduce Operations for Numpy

Numpy arrays come with several reduce operations: sum(), std(), argmin(), min(), ....

The traditional implementation ...

Milksets: Machine Learning Datasets for Python

This packages contains some U.C.I. datasets in a common Pythonic interface, which ...

Milk: Machine Learning Toolkit for Python

This is the code that I use for my research projects.

If you like ...

Mahotas: Computer Vision in Python

Mahotas is a set of functions for image processing and computer vision in Python.

It ...

Jug Tutorial

Software

I have written some open-source software, some to scratch an itch, and some as part of my research.

Imread: Reads images into numpy arrays

This is a simple image module, which has two functions

imread

reads an image ...

Hex: Reimplementing TeX in Haskell

Hex is a reimplementation of TeX in Haskell. It is not very functional yet. It ...

Git Content Management System

FASTA Reader in Python

A very simple reader/writer for FASTA encoded DNA sequences.

    # -*- coding: utf-8 -*-
    # copyright  2006 inesc/id ...

El Greco

This is an implementation of topic models in C++ with a Python interface.