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Name: Gerrit Reinier Botha
Type: User
Company: University of Cape Town
Location: Cape Town
Gerrit Reinier Botha 's Projects
16s-int-bt
16S Intermediate Bioinformatics training manuals
16s-rdna-dada2-pipeline
TADA - Targeted Amplicon Diversity Analysis - a DADA2-focused Nextflow workflow for any targeted amplicon region
16srdna
Repository containing the CBIO H3ABioNet 16S rDNA diversity analysis node assessment code and documentation
16srrna-hex-tutorial
16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.
agd
GAPW's African Genome Diversity team's code repository.
amw
16S analysis tutorial - part of Analysing the Microbiome Workshop 2017. We ran this on the Wits cluster.
azure-cbio
Setup for all Azure related CBIO work
azure-quickstart-templates
Azure Quickstart Templates
batch-system-comp
Scripts showing some comparison between SLURM and PBS/TORQUE submissions
bioinftk
Some bioinformatics helper scripts
chip-2024-biosample
SQlite exercise
chip-2024-variant-calling
Variant calling workflow exercise
containers
Repos with containers regularly used
cram-qc
crypt4gh
GA4GH cryptographic tools
crypt4gh-tutorial
A tutorial on using Crypt4GH
devops101-terraform-ansible-openstack
Support files for a tutorial regarding Terraform, Ansible and OpenStack
docker-action
elwazi-workshop-vm-setup
flagstat
ga4gh-starter-kit-drs
Open, extensible server implementation of the GA4GH Data Repository Service (DRS) specification
ga4gh-starter-kit-wes
Starter Kit server implementation of the GA4GH Workflow Execution Service (WES) specification
h3abionet-sops
Standard operating procedures for H3ABionet data processing and analyses
h3avarcall
H3A variant calling pipeline
howfairis
Command line tool to analyze a GitHub or GitLab repository's compliance with the fair-software.eu recommendations
humgen-hpc
Human genetics workshop exercises on UCT Hex. Also being used for the variant calling component of the IBS5004Z module of the UCT data science masters.
hupan
Human pan-genome analysis pipeline
ilifu-demo-nov18
Demonstration of virtual cluster and Galaxy deploy on Ilifu cloud
ilifu_user_docs
User documentation for the Ilifu project
multiqc
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