Gillespie Stochastic Simulation Algorithm

CMSC737 - Assembly Model Testing

The Matlab tool for Prediction Uncertainty Analysis (PUA) integrates Profile Likelihood analysis with Bayesian sampling.

ADAPT toolbox for Matlab - Analysis of Dynamic Adaptations in Parameter Trajectories

Bioinformatics problems and solutions

MICA-aligner is a new short-read aligner that is optimized in view of MIC's limitation and the extra parallelism inside each MIC core.

Tools for data mining of brain graphs. Related publication: http://dx.doi.org/10.1007/s11571-017-9445-1

Replicate figures + analyses from: "Integrative modelling reveals the principles of multi-scale chromatin boundary formation in human nuclear organisation"

Different Computations Solutions for Bioinformatics Problems from a bioinformatics course at Chalmers Institute of Technology

GIMSAN: motif-finder with biologically realistic and reliable statistical significance analysis

A Hodgkin-Huxley model implementation for DD2401 Neuroscience at KTH

geneSpark is a bioinformatics software program written in Python and Apache Spark for big data epigenetic histone modification ChIP-seq analysis.

Alinhamento de sequencias,algoritmos de alinhamento global e semi-global, Biologia computacional.

A visual simulation of the Hindmarsh-Rose neuron model.

miRNA-UTR approximate matching algorithms in R/Python/Bash

InteractoMIX: a suite of computational tools to exploit interactomes in biological and clinical research.

Demultiplex 454 Genome Sequencer reads from a SFF file

Mutual information between continuous variables in Python

Collection of 1069 Escherichia coli virulence factors

A toolkit for predicting the binding mode of small molecules interacting with proteins based on interfacial rigidification, as assessed by graph theoretic constraint counting on the covalent and noncovalent bond network. Raschka et al. (2016) Proteins: Structure, Function, and Bioinformatics