Eike Steinig

nanoq. Minimal but speedy quality control for nanopore reads in Rust :bear:

sketchy. Genomic neighbor typing of bacterial pathogens using MinHash :rat:

vircov. Viral genome coverage evaluation for metagenomic diagnostics :drop_of_blood:

brick. BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons :microbe:

scrubby. Host depletion optimised for clinical metagenomic sequencing applications :panda_face:

netviewr. Mutual nearest neighbor graphs for population structure inference and visualization :octopus:

netview. Mutual nearest neighbor graphs and data visualization for genomic population networks :octopus:

BRIGAD3. D3 and Vue component for visualization of bacterial genome assemblies from nanopore sequence data

netviewP. NetView for Python

dartqc. Quality Control for DArT SNPs

cerebro. Metagenomic diagnostics stack for low abundance sample types and clinical reporting

achilles. Artificial neural networks for taxonomic nanopore signal classification in host microbiomes *update soon* :deciduous_tree:

sccion. Genotyping toolkit and long-read assembly pipelines for Staphylococcus aureus *under construction* :grapes:

shinyGenes. Gene Segment Plots

Streamfish. Adaptive sampling client for nanopore devices; a streamy relative of Readfish

nctc-tools. Data mining and analysis pipeline for complete bacterial genome assemblies from the NCTC :bug:

thicket. Parallel bootstrapping for maximum-likelihood phylogenies wrapping RAxML-NG, PhyML and FastTree :herb:

geneD3. Sequence Comparisons D3

poremongo. Nanopore signal management and neural network training data compiler in MongoDB *update soon* :seedling:

nf-mvp. A minimum viable Nextflow pipeline (Bioinformatics Clinic)

melioidosis. Python

ca-mrsa. Emergence of community-associated MRSA

pnodes. Pretty print pbsnodes for Torque/PBS.

meta-gpt. MetaGP

machine. Welcome to the Machine

admixtureD3. Interactive Admixture Plots in D3

critter. BEAST models for pathogen transmission dynamics in Python