BC Centre for Disease Control Public Health Laboratory
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123 repositories
taxon-abundance
Publicfluviewer-nf
PublicWasteFlow
PublicNextflow pipeline for pathogen surveillance in wastewaterroutine-assembly
PublicPipeline for performing routine genome assemblyauto-fastq-symlink
PublicAutomated symlinking of sequence datadownsample-reads
Publicmlst-nf
PublicRun mlst on multiple samples with integrated quality control.tbprofiler-nf
PublicNextflow Wrapper for TBProfilerkma-cgmlst
PublicA cgMLST pipeline based on the KMA alignerroutine-nanopore-qc
Publicroary-nf
Publicamplicone
Publicbioinflow
Publiccgmlst-clustering
PublicScripts to support clustering of cgMLST allele profilesfluflo
PublicNextflow pipeline for generation of phylogenetic trees to be visualized in Auspice.auspice
Publicauspice-docker
Publicalignment-variants
PublicPipeline to perform alignment & variant calling on whole-genome sequence data- Collect Routine QC for Nanopore Sequence Data
auto-routine-nanopore-qc
Publicsimulate-long-reads
PublicGenerate simulated oxford nanopore reads from a reference sequencebasic-sequence-qc
PublicGenerate some basic quality control statistics on an arbitrary set of illumina fastq sequence files.plasmid-assembly
Publicsnippy-variants
PublicPerform read mapping and variant calling using snippympxv-artic-nf
Publicprocess-nanopore
Publicnorovirus-blast-nf
Publiccpo-results-collector
Publicamplicon-consensus
Public