cjjossart's repositories
augur-nf
Nextflow implementation of Nextstrain's Augur pipeline
Bacillus_anthracis_PXO1
Phylogenetic analsysis of Bacillus Anthracis virulence plasmid Pxo1
bioconda-recipes
Conda recipes for the bioconda channel.
Cecret
Nextflow workflow for our analysis of SARS-COV-2
docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
EDS611a
For the final presentation
InfectiousDiseaseMortality
Infectious Disease Mortality and Environmental Factors
modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
mycosnp-bwa-reference
This workflow prepares a reference index using BWA as part of the MycoSNP suite of workflows.
mycosnp-nf
nf-core/mycosnp
postrun_scripts
This repository houses wrapper scripts for various Bioinformatics workflows.
spriggan
Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.
viralrecon
Assembly and intrahost/low-frequency variant calling for viral samples