Andrew Warren's repositories
clustertracker_va
Code for a webpage displaying introductions and resulting clusters of coronavirus across the USA. Customized for CA Dept. of Public Health.
transit
Repository for the TRANSIT and TPP tools developed by the Ioerger Lab
pango_alias_table
Make an aliasing table of pangolin lineages using the hierarchy to partition all lineages to the most specific alias label that applies to the row.
phyloview
a phylogenetic tree viewer using D3
bvbrc_website
Repository for the BV-BRC website.
pango_aliasor
Utility to alias and dealias pango lineages
bvbrc_grab_features
Given genome ids get the associated protein features using the BVBRC API
ncov-clades-schema
Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
Prok-tuxedo
Wrapper for running the tuxedo pipeline for prokaryotes.
aswarren.github.io
aswarren site
matplotlib
matplotlib: plotting with Python
bionetworks-1
Models and code for bionetworks synethesis
asw_learn
For teaching git
pangenome_graphs
Constructing pan genome graphs from "protein family" assignments
patric_cli_sif
singularity container for patric cli
GenGraph
A repository for the GenGraph toolkit for the creation and manipulation of graph genomes
p3_msa
MSA variance service
app_service
Application execution service.
grc
The Genome Reverse Compiler (GRC) is an automated annotation tool designed for prokaryotic genomes.