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Joe Healey's Projects

aurorasynesthesia icon aurorasynesthesia

This is the new home for the screen and audio capture utility for controlling amBX lights. This software is not in active development, and is here mainly to provide a new download location and a way for people to access the source code.

badassbash icon badassbash

An all-singing, all-dancing, bash template for cool CLI scripts (a bash cookiecutter).

bash_functions icon bash_functions

Functions I keep in my .bash files. Usually written badly by myself (to handle only very specific cases) or also possibly stolen off the internetz

bioinfo-tools icon bioinfo-tools

Just a collection of (often poor) scripts to do various bits of bioinformatics stuff I find myself needing to do.

biopython icon biopython

Official git repository for Biopython (converted from CVS)

chimera icon chimera

Scripts for UCSF Chimera and PyChimera, for data analysis and graphics generation

deseq2-tutorial icon deseq2-tutorial

A transliteration of the DESeq2 Tutorial by Dave Wheeler which no long seems to be live, so I'm preserving it in case it disappears from the WaybackMachine

dnafeaturesviewer icon dnafeaturesviewer

:eye: Python library to plot DNA sequence features (e.g. from Genbank files)

isis icon isis

Nothing to do with the Islamic State; a repository to hold data and workflows for In Silico Immunogenicity Studies

journalbot icon journalbot

Source code for Journal club bot at https://twitter.com/JC_pathogenomic

jrjhealey.github.io icon jrjhealey.github.io

:sparkles: Build a beautiful and simple website in literally minutes. Demo at http://deanattali.com/beautiful-jekyll

multigeneblastparser icon multigeneblastparser

Script(s) to handle the output of MultiGeneBlast (http://multigeneblast.sourceforge.net/)

oread icon oread

A commandline and GUI tool for the creation of Artemis/Artemis Comparison Tool files.

pdb2cdextrapolator icon pdb2cdextrapolator

A (relatively) simple extrapolation script for PDB2CD web server data, to allow it to be compatible with Dichroweb and other Circular Dichroism tools.

perltengwartranscriber icon perltengwartranscriber

This is an English -> TeX transcriber to typeset Tolkein's Elvish in LaTeX. I struggled to find this code online so am reuploading it here.

photocore icon photocore

Workflow for creating a core/pangenome of Photorhabdus

precice icon precice

Image analysis using OpenCV in python

prymer icon prymer

Decided to write my own thingy to automatically generate/test primer sequences.

pycyborg icon pycyborg

Reverse engineering a USB protocol for cyborg gaming lights

pylogeny icon pylogeny

A tool for conversion from assorted NCBI Accessions to NCBI Taxonomy IDs

sentry icon sentry

My own take on https://github.com/arlowhite/process-watcher

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