Terry Jones's repositories
dark-matter
Virus discovery
slurm-pipeline-feedstock
A conda-smithy repository for slurm-pipeline.
filta
A handy-dandy filter builder
pegwords
Utils for making mnemonic pegword-like word sequences from digit sequences
snakemake
This is the development home of the workflow management system Snakemake. For general information, see
biopython
Official git repository for Biopython (converted from CVS)
dabeaz-blog
David Beazley's blog.
pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
PRJNA692319_public
Analysis of Antarctica sequencing samples contaminated with SARS-CoV-2
aoc-2021
Advent of Code
ggboxplot-random-seed-demo
A Shiny app showing how ggboxplot resets the RNG to a constant value each time it is used
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
CuratedGenBank
Curated Hepatitis B Virus Alignments from GenBank Data
bih-cluster
BIH Cluster Wiki
augur
Pipeline components for real-time phylodynamic analysis
auspice
Web app for visualizing pathogen evolution
nextstrain.org
The Nextstrain website
cli
The Nextstrain command-line tool, providing access to Nextstrain components in a local environment with a minimum of fuss.
datasette
A tool for exploring and publishing data
ncov
Nextstrain build for novel coronavirus (nCoV)
matplotlib
matplotlib: plotting with Python
guardian-sandwich-problem
Solving a problem in the Guardian
rosalind
Solutions to some Rosalind problems