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16s-rrna-analysis

16srrna-hex-tutorial

16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.

2018-alliance-for-global-health-and-science-makerere-university_mca

2018 Alliance for Global Health and Science, Makerere University, Microbial Community Analysis

2019-winter-bioinformatics_command_line_and_r_prerequisites_workshop

An introduction to the basics of bioinformatics for biologists. No data analysis experience necessary.

2019_april_esalq_microbial_community_analysis

2019 April ESALQ Microbial Community Analysis in Piricicaba, State of Sao Paolo, Brazil

2019_september_ucd_microbial_community_analysis_workshop

2019 September UCD Microbial Community Analysis Workshop - Amplicons

2020-genome_assembly_workshop

Explore the world of genome assembly and gain an understanding of the power and pitfalls of sequencing technologies and assembly techniques.

2020-mrna_seq_workshop

Focused multi-day workshop covering the material needed for a successful RNA-Seq experiment.

2020-repos

30-days-of-python

30 days of Python programming challenge is a step by step guide to learn the Python programming language in 30 days. This challenge may take up to 100 days, follow your own pace.

african_genomics_medicine_portal

This is the African Genomic Medicine Portal that provides information about African genomics and variation with regards to pharmocology and disease. AGMP

ampseq_workflow

angus

Materials for Analyzing Next-Generation Sequencing (ANGUS) course.

animation

A gallery of animations in statistics and utilities to create animations

any2fasta

Convert various sequence formats to FASTA

asap

A scalable bacterial genome assembly, annotation and analysis pipeline

assembly_improvement

Improve the quality of a denovo assembly by scaffolding and gap filling

assignment-template

awesome-nextflow

A curated list of nextflow based pipelines

bacterialgwas

A pipeline for performing genome-wide association tests for bacterial genomes.

bactopia

A flexible pipeline for complete analysis of bacterial genomes

bash-arg-parse

Simple CLI argument parsing template for a stand alone bash script

basic-linux-commands

berokka

🍊 💫 Trim, circularise and orient long read bacterial genome assemblies

biobakery_workflows

bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.

biopython-notebook

Notebooks to introduce biopython

blog

Code for personal blog. Built using blogdown and Hugo, with deployment through Netlify

blogdown

Create Blogs and Websites with R Markdown

centrifuge

Classifier for metagenomic sequences

choleraegon

Pipeline for assembly and antimicrobial resistance gene detection