ariba

Last released Sep 7, 2020

ARIBA: Antibiotic Resistance Identification By Assembly

chado-tools

Last released Aug 23, 2019

Tools to access CHADO databases

farmpy

Last released Feb 28, 2019

Package to run farm jobs - currently LSF supported

pymummer

Last released Feb 28, 2019

Wrapper for MUMmer

pyfastaq

Last released Feb 19, 2018

Script to manipulate FASTA and FASTQ files, plus API for developers

circlator

Last released Jan 31, 2018

circlator: a tool to circularise genome assemblies

iva

Last released Jan 25, 2018

Iterative Virus Assembler

seroba

Last released Nov 21, 2017

SEROBA: Serotyping for illumina reads

bio_assembly_refinement

Last released Apr 19, 2016

Assembly refinement tools, mostly useful for (but not limited to) pacbio bacterial assemblies

jsontoemail

Last released Mar 28, 2015

Deprecated: please use json2email instead

json2email

Last released Mar 28, 2015

Takes a jinja2 template and some json and sends an email

path_pipe_conf_tools

Last released Mar 26, 2015

Tools for working with the pathogen pipeline at The Wellcome Trust Sanger Institute

farm_blast

Last released Feb 2, 2015

Package to run blast in parallel on a compute farm