AliceWi

grimer

GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and metadata with focus on contamination detection.

poreCov

SARS-CoV-2 workflow for nanopore sequence data

Pandas-Bokeh

Bokeh Plotting Backend for Pandas and GeoPandas

autopore

Suite of CWL workflows for nanopore de novo assembly.

dash-alignment-viewer

flask_heroku_example

How to deploy a Flask application using Heroku

dash_on_flask

Dash on Flask with login_required (and application factory pattern)

pdf_reports

:closed_book: Python library and CSS theme to generate PDF reports from HTML/Pug

vcf2phylip

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

Badread

a long read simulator that can imitate many types of read problems

Long-read-assembler-comparison

Benchmarking of long-read assembly tools for bacterial whole genomes

hamiltonian-paths

Try finding a Hamiltonian path/cycle in the planar dodecahedron graph (play Hamilton's Icosian game).

lorenz-system

Explore the Lorenz system and its chaotic properties.

netwulf

Interactive visualization of networks based on Ulf Aslak's d3 web app.

screencasts

Code that goes along with my screencasts.