terrycojones

rpnpy

A reverse-Polish notation calculator for Python

pystdin

Wrap command-line Python in a loop over standard input

best

Bayesian estimation supersedes the t-test

dark-matter

Virus discovery

simanneal

Python module for Simulated Annealing optimization

aoc-2021

Advent of Code

augur

Pipeline components for real-time phylodynamic analysis

auspice

Web app for visualizing pathogen evolution

bih-cluster

BIH Cluster Wiki

biopython

Official git repository for Biopython (converted from CVS)

cli

The Nextstrain command-line tool, providing access to Nextstrain components in a local environment with a minimum of fuss.

CuratedGenBank

Curated Hepatitis B Virus Alignments from GenBank Data

dabeaz-blog

David Beazley's blog.

datasette

A tool for exploring and publishing data

DendroPy

A Python library for phylogenetic scripting, simulation, data processing and manipulation.

elevator

filta

A handy-dandy filter builder

findus-gcse

ggboxplot-random-seed-demo

A Shiny app showing how ggboxplot resets the RNG to a constant value each time it is used

jules-pipeline-hack

matplotlib

matplotlib: plotting with Python

ncov

Nextstrain build for novel coronavirus (nCoV)

nextstrain.org

The Nextstrain website

OpenRDP

An open-source re-implementation of the RDP4 recombination detection program

pegwords

Utils for making mnemonic pegword-like word sequences from digit sequences

PRJNA692319_public

Analysis of Antarctica sequencing samples contaminated with SARS-CoV-2

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.

slurm-pipeline-feedstock

A conda-smithy repository for slurm-pipeline.

snakemake

This is the development home of the workflow management system Snakemake. For general information, see

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks