• Binary Classification: a visual refresher (2020) png, code
• Techniques for Inhomogeneous Linear PDEs (2019) pdf
• Conduction in the Heart Wall: Helicoidal Fibers Minimize Diffusion Bias (2018) Nature Scientific Reports
• Necessary and Sufficient Conditions for Weak Local Variational Extrema (2017) pdf
• Predicting the Geothermal Heat Flux in Greenland: A Machine Learning Approach (2017) Geophysical Research Letters, code
• Gradient Boosted Regression Trees, a brief introduction (2017) pdf
• Elementary Linear Algebra Fact Sheet (2017) pdf
• Measure Theory and Integration (2016) pdf
• Topological Properties of Dynamical Systems (2015) pdf
• A Course in Abstract and Numerical Linear Algebra (2011) pdf
• Bootstrap and Jacknife; Resampling Methods in Estimator Assessment (2010) pdf

• Word-Blot: Sensitive Alignment-free Local Similarity Search with kD-Trees (2018, in preparation) code
• An Evolutionary Model for the Emergence of Scale-Free Biological Networks (2017) pdf, code
• Genome Assembly with Long Noisy Reads II (2016) pdf, supplements
• Genome Assembly with Long Noisy Reads I (2015) pdf

• Synchronization in Cortical Networks (2016) pdf
• Syntactic Capacities of Songbirds (2016) pdf
• Local Protein Synthesis in Neurons (2016) pdf
• Estimation of Coherence in Local Field Potentials (2016) pdf, code

• A Git Branching Model for SaaS Continuous Delivery (2020) github
• Behavioral Tests for Django, an overview (2019) gist
• Object Oriented Programming in Python, A Graded Knowledge Check (2019) gist
• biseqt (code, docs): Biological sequence analysis toolkit in python: flexible and light C implementation of standard dynamic programming sequence alignment algorithms, seed and kmer analysis backed by SQLite.
• science-py-env (docker hub, code): a docker base image for scientific computing,
• sphinxcontrib-wiki (pypi, code, docs): a sphinx extension that adds a wiki functionality to sphinx,
• rdbmanage.py (code): a configurable scheduler/manager for rdiff-backup.
• dockergen (code): create docker build contexts from predefined configuration snippets.
• SiteDiff (code, docs): a tool for comparing two versions of a website (visualized diff for html)
• Chef cookbooks for Drupal, and Apache Solr servers.
• A survey of frameworks for end-to-end testing of web applications: gist.
• Networking with docker containers using Linux kernel transparent proxies: gist.
• A guide for handling MS Access MDB files in Linux with PHP5 PDO and ODBC: gist.