Pinned Repositories
alignment_training
aquascope
artic-mn
a nextflow workflow for analysis of SARS-CoV-2 sequencing data generated on ONT sequencers using libraries created by sequencing protocols based on the ARTIC SARS-CoV-2 sequencing protocol
artic-ncov2019
ARTIC nanopore protocol for nCoV2019 novel coronavirus
augur-nf
Nextflow implementation of Nextstrain's Augur pipeline
bioconda-recipes
Conda recipes for the bioconda channel.
central-region
Site for AMD Central Region
docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
fieldbioinformatics
The ARTIC field bioinformatics pipeline
HAI-Seq
HAI_QC: Scripts for performing QC on sequencing data prior to upload to NCBI
garfinjm's Repositories
garfinjm/HAI-Seq
HAI_QC: Scripts for performing QC on sequencing data prior to upload to NCBI
garfinjm/alignment_training
garfinjm/aquascope
garfinjm/artic-mn
a nextflow workflow for analysis of SARS-CoV-2 sequencing data generated on ONT sequencers using libraries created by sequencing protocols based on the ARTIC SARS-CoV-2 sequencing protocol
garfinjm/artic-ncov2019
ARTIC nanopore protocol for nCoV2019 novel coronavirus
garfinjm/augur-nf
Nextflow implementation of Nextstrain's Augur pipeline
garfinjm/bioconda-recipes
Conda recipes for the bioconda channel.
garfinjm/central-region
Site for AMD Central Region
garfinjm/docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
garfinjm/fieldbioinformatics
The ARTIC field bioinformatics pipeline
garfinjm/legsta-nf
Nextflow wrapper for read cleaning, assembly, and legionella SBT from short reads
garfinjm/MNextstrain
garfinjm/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
garfinjm/ncov
Nextstrain build for novel coronavirus SARS-CoV-2
garfinjm/primer-schemes
Primer schemes for real-time genome epidemiology
garfinjm/qmk_firmware
Open-source keyboard firmware for Atmel AVR and Arm USB families
garfinjm/serotypefinder-nf
E. coli serotyping typing from raw reads
garfinjm/staph-b.github.io
Visit the site here:
garfinjm/staphb_toolkit
Python Toolkit for using containerized programs in either Singularity or Docker