Andrew Warren's repositories
pangenome_graphs
Constructing pan genome graphs from "protein family" assignments
app_service
Application execution service.
aswarren.github.io
aswarren site
bionetworks-1
Models and code for bionetworks synethesis
bvbrc_grab_features
Given genome ids get the associated protein features using the BVBRC API
bvbrc_website
Repository for the BV-BRC website.
clustertracker_va
Code for a webpage displaying introductions and resulting clusters of coronavirus across the USA. Customized for CA Dept. of Public Health.
GenGraph
A repository for the GenGraph toolkit for the creation and manipulation of graph genomes
grc
The Genome Reverse Compiler (GRC) is an automated annotation tool designed for prokaryotic genomes.
matplotlib
matplotlib: plotting with Python
ncov-clades-schema
Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
p3_msa
MSA variance service
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.
pango_aliasor
Utility to alias and dealias pango lineages
patric_cli_sif
singularity container for patric cli
phyloview
a phylogenetic tree viewer using D3
Prok-tuxedo
Wrapper for running the tuxedo pipeline for prokaryotes.
sra_import
SRA import for PATRIC
TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data