Name: BC Centre for Disease Control Public Health Laboratory
Type: Organization
Bio: The BCCDC Public Health Laboratory is the primary public health and reference diagnostic testing facility for British Columbia.
Location: Vancouver, BC
Blog: www.bccdc.ca/publichealthlab
BC Centre for Disease Control Public Health Laboratory's Projects
RAPID Analysis and Processing of Incoming Data
Generate pipeline runs for submission to RAPID
Simple Nextflow wrapper for running ReferenceSeeker with integrated QC.
Pipeline for performing routine genome assembly
Pipeline for performing routine uploads of illumina sequence data to the IRIDA analysis platform
Routine sequence QC for nanopore data
Collect Routine QC for Nanopore Sequence Data
Pipeline for running routine quality control analyses on illumina sequence data
Collect outputs from BCCDC-PHL/routine-sequence-qc pipeline for usage by BCCDC-PHL/routine-sequence-qc-site
A site for displaying routine sequence QC data
SARS-Cov-2 Recombinant Finder for fasta sequences
A service for storing and retrieving info about sequencing runs.
A web service for providing info about sequencing runs.
Generate simulated oxford nanopore reads from a reference sequence
Generate simulated illumina sequence reads from a reference sequence
Perform read mapping and variant calling using snippy
Listen for messages indicating the arrival of a new illumina run. When a new run arrives, create symbolic links (aka. 'symlinks') from .fastq.gz files in the run to a specific directory.
Create fastq symlinks for selected samples in sequencer output directories based on several criteria
Database for storage of M. tuberculosis genomics analysis results
Nextflow Wrapper for TBProfiler
A pipeline implementing TB-profiler for detection and reporting of AMR in Mtb for public health
A Nextflow wrapper for the Troika pipeline
Detect SARS-CoV-2 variants using outputs from the ncov2019-artic-nf pipeline
Check for differences between two vcf files
Customized vcf_melt script from pyvcf. Handles snpEff-annotated vcf files
Nextflow pipeline for pathogen surveillance in wastewater