ESR-NZ/GenomicsNarrativeSARSCoV2

Stars
1
Language
License
Creative Commons ...
Created about 4 years ago
Updated about 3 years ago

ESR-NZ/GenomicsNarrativeSARSCoV2

ESR-NZ

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

A companion document to the genomics data from NZ cases

human_genomics_pipeline

A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

covid_in_wastewater

Quantitative data about how much SARS-CoV2 virus is found in New Zealand's wastewater

NZ_COVID19_Data

nz-sars-cov2-variants

Data on prevalence of variants of concern in Aotearoa New Zealand

vcf_annotation_pipeline

A Snakemake workflow to filter, annotate and prepare variant call format (VCF) data for scout using GATK4, SnpSift, VEP and genmod. Designed to be used after human_genomics_pipeline.

NZ_SARS-CoV-2_genomics

POx_POC_pipeline

Point of care species ID by kraken2 ONT read classification for Xaiver platform

GraphPanGenomes_Microbial

Microbial genomics pipeline to build and analyse genome graphs

Training

training materials

Notifiable-Diseases-Annual-Dashboard-

This repository is to make Annual Notifiable Disease Dashboard data public.

2019-05-28-DC-ESR-MASC

MASC DC Workshop 28-29 May 2019

2020-11-24-ESRpython

human_genomics_pipeline_gpu

A GPU accelerated Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using bwa/GATK4.