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sanger-pathogens

sanger-pathogens

Joined on Feb 2, 2015

Projects

ariba

Last released on Dec 5, 2016

ARIBA: Antibiotic Resistance Identification By Assembly

bio_assembly_refinement

Last released on Apr 19, 2016

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

circlator

Last released on Oct 17, 2016

circlator: a tool to circularise genome assemblies

farm_blast

Last released on Feb 2, 2015

Package to run blast in parallel on a compute farm

farmpy

Last released on Mar 29, 2016

Package to run farm jobs - currently LSF supported

iva

Last released on May 12, 2016

Iterative Virus Assembler

json2email

Last released on Mar 28, 2015

Takes a jinja2 template and some json and sends an email

jsontoemail

Last released on Mar 28, 2015

Deprecated: please use json2email instead

path_pipe_conf_tools

Last released on Mar 26, 2015

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

pyfastaq

Last released on Sep 1, 2016

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

pymummer

Last released on Nov 18, 2016

Wrapper for MUMmer

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