fmaguire
Assistant Professor (Computer Science & Epidemiology). Working on infectious disease genomic epidemiology & data-driven solutions to social crises
Community Health & Epidemiology / Computer Science, Dalhousie UniversityHalifax, Nova Scotia, Canada
Pinned Repositories
rgi
Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.
pangolin
Software package for assigning SARS-CoV-2 genome sequences to global lineages.
ete
Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.
amr_training_workshop_practical
Practical exercise for the JPI-AMR/PHA4GE/CLIMB AMR Genomics Training Workshop
Bridger_Assembler
Rehost of Bridger Assembler from Sourceforge
evolving_threat_detector
Identifying changes in resistome relative to closest relatives and contextualising results
on_deer_spillback_analyses
parKour
Paired Arrangement of Reads via Kmeans On Unlabelled RNA-Seq
WoLFPSort
WoLFPSort v0.2 source code as original server no longer available
hAMRonization
Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure
fmaguire's Repositories
fmaguire/WoLFPSort
WoLFPSort v0.2 source code as original server no longer available
fmaguire/amr_training_workshop_practical
Practical exercise for the JPI-AMR/PHA4GE/CLIMB AMR Genomics Training Workshop
fmaguire/on_deer_spillback_analyses
fmaguire/AMR_Metagenome_Simulator
Nextflow workflow for simulating a metagenome with inserted AMR genes
fmaguire/vector_figures
Collection of conceptual SVG figures created by me for talks
fmaguire/incel_social_media_descriptive_analysis
Social media analysis code for incel descriptive language project
fmaguire/quick_amr_db_harmonisation
Quick dirty way of mapping ResFinder and NCBI AMR databases to CARD's ARO
fmaguire/fmaguire.github.io
Personal webpage
fmaguire/incel_sexual_violence
Repository for supporting frequency data re: incel use of sexually violent language
fmaguire/rgi
Resistance Gene Identifier (RGI)
fmaguire/amplicon_scheme_hasher
Simple tool for hashing and comparing hashes of amplicon scheme bed files.
fmaguire/amr_metadata_project
fmaguire/bactopia.github.io
Bactopia Documentation
fmaguire/BandageBLAST
BLAST functionality of Bandage
fmaguire/bioconda-recipes
Conda recipes for the bioconda channel.
fmaguire/cell-format
fmaguire/CV
CV
fmaguire/filter_flow
fmaguire/IDE_2024
fmaguire/ncov-tools
Small collection of tools for performing quality control on coronavirus sequencing data and genomes
fmaguire/ncov-watch
Tools for detecting mutations of interest in SARS-CoV-2 sequencing results
fmaguire/nf-flu
Influenza genome analysis Nextflow workflow
fmaguire/pha4gecon_hAMRonization
fmaguire/pLannotate
Webserver and command line tool for annotating engineered plasmids
fmaguire/primer-schemes
Schemes for SarsCoV2 sequencing
fmaguire/primer-schemes-artic
Primer schemes for real-time genome epidemiology
fmaguire/recomb_mem_test_data
Random 10k sampled test data for MEM/Recomb idea
fmaguire/scientific_computing
2024-2025 Winter Term offering of Computer Modelling for Scientists
fmaguire/segregation_abuse_foipop
Analysis of NS correctional facility segregation FOI data
fmaguire/setup-miniconda
Set up your GitHub Actions workflow with conda via miniconda