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16s-rdna-dada2-pipeline

**DEFUNCT** dada2-based Nextflow pipeline for multiple amplicon data. See website for up-to-date version

abricate

:mag_right: :pill: Mass screening of contigs for antimicrobial and virulence genes

ampliseq

16S rRNA amplicon sequencing analysis workflow using QIIME2

bacannot

Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation

bioinformatics_side

Summary of important things for me:

blastn_so_hot

bx_pgap

pgap_container

coding_excercises

A public repo of coding exercises

cv.js

D3/Bootstrap CV generator

cwa-app-android

Native Android app using the Apple/Google exposure notification API.

docker_files

docker_files

docker_files_gpu

nvidia docker files

docker_files_large

Larger Docker files

docker_pipelines

Nextflow/Docker pipelines for "easy use"

fieldbioinformatics

The ARTIC field bioinformatics pipeline

findtelomeres

A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files

gcs-file-uploader

ggpubr

'ggplot2' Based Publication Ready Plots

github-markdown-toc

Easy TOC creation for GitHub README.md

ideel

Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes

mkdocs

Project documentation with Markdown.

mkdocs-material

A Material Design theme for MkDocs

mpoa

Mask Pathogens for Outbreak Analysis

muffin_documentation

https://rvandamme.github.io/MUFFIN_Documentation/#introduction

nanopore_sync_away

easy file transfer of fast5 while running a sequencing run

nextclade

Viral genome alignment, clade assignment, mutation calling, and quality checks

norse

GUI for nanoopore sequencing

plasmid_analysis

Repository for https://www.nature.com/articles/s41598-019-47758-5

plasmident

porecov

SARS-CoV-2 workflow for nanopore sequence data