Institute of Environmental Science and Research (@ESR-NZ)
Guthub

ESR-NZ

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  • Stars
    star
    103
  • Global Org. Rank 57,180 (Top 19 %)
  • Registered about 7 years ago
  • Most used languages
    Python
         62.5 %
    Shell
         12.5 %
    HTML
         12.5 %
    Roff     12.5 %
  • Location 🇳🇿 New Zealand
  • Country Total Rank 862
  • Country Ranking
    Roff     4
    Shell
         176
    Python
         177
    HTML
         609

Top repositories

1

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.
Python
30
star
2

covid_in_wastewater

Quantitative data about how much SARS-CoV2 virus is found in New Zealand's wastewater
19
star
3

NZ_COVID19_Data

13
star
4

nz-sars-cov2-variants

Data on prevalence of variants of concern in Aotearoa New Zealand
11
star
5

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.
Python
8
star
6

NZ_SARS-CoV-2_genomics

Shell
6
star
7

POx_POC_pipeline

Point of care species ID by kraken2 ONT read classification for Xaiver platform
Python
5
star
8

GraphPanGenomes_Microbial

Microbial genomics pipeline to build and analyse genome graphs
Roff
3
star
9

Training

training materials
2
star
10

Notifiable-Diseases-Annual-Dashboard-

This repository is to make Annual Notifiable Disease Dashboard data public.
2
star
11

2019-05-28-DC-ESR-MASC

MASC DC Workshop 28-29 May 2019
Python
2
star
12

2020-11-24-ESRpython

HTML
1
star
13

GenomicsNarrativeSARSCoV2

A companion document to the genomics data from NZ cases
1
star
14

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.
Python
1
star