Discovered public repositories for johnchase in the GitHub catalog.
VariantToolChest (VTC) is intended to be a powerful tool chest to analyze VCF files. I encourage anyone to contribute their tools and help improve existing tools. VTC currently provides two powerful tools: (1) SetOperator for performing powerful set operations; and (2) VarStats for various statistics on VCF files.
Public repository.
This repository is now frozen - please see the note below.
Interactive lessons in bioinformatics.
A workflow for graphing
Short pandas tutorial for code review.
Public repository.
Public repository.
Working with Pygame!
code for manipulating mapping files and distance matrices
The Biological Observation Matrix (BIOM) Format Project
Coursera data analysis course, done in Python
Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests
Core objects, functions and statistics for working with biological data in Python.
Application controllers for command line bioinformatics applications
aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)
A collection of IPython Notebooks that I use for teaching.
Recipes for using Python's pandas library
isaiahs_repository
Tools for loading genomic variant data into BIOM format
Public repository.
Repository for mapping files and code related to the Sloan Office Project
repository for in house scripts and utility files
Public repository.
Code to generate biom format tables containing human genetic variation
Public repository.