apetkau

genomics-data-index

Indexes genomes using SNVs, MLST, or kmers for rapid querying, clustering, and visualization.

nf-core-assemblyexample

nf-core-genomicnomenclature

cardlive-presentation-2020

ggtree-tutorial

nf-core-mlstprofiler

nf-core-pathoidentification

2022-01-26-Downloading-and-assembling-microbial-sequence-data

Repository for January 26, 2022 "Downloading and assembling microbial sequence data" Workshop by Aaron Petkau

assembly-nf

bioconda-recipes

Conda recipes for the bioconda channel.

CBW_GenEpi_2021

EToKi

all methods related to Enterobase

fetchngs

Pipeline to fetch metadata and raw FastQ files from public and private databases

from-samplesheet-test-nf

genomics-data-index-evaluation

genomics-data-index-evaluation-manuscript

genomics-data-index-examples

Documentation and example code for an index of SNVs, kmers, and MLST (genomics-data-index).

IDE_2021

irida

Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology

irida-plugin-species-abundance

Estimate the relative abundance of sequence reads originating from different species in a sample using the IRIDA system

nextflow-plugins

Nextflow plugins index repository

nf-core-assemblyexample2

nf-core-modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

nf-core-queryprofiles

nf-hello

Nextflow plugin implementation skeleton

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

test-security-scanning

tools-iuc

Tool Shed repositories maintained by the Intergalactic Utilities Commission

training-material

A collection of Galaxy-related training material

vtec-workshop-2023