FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. 🐳📦

A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences

finding conserved regions in highly diverse genomes

Inofficial R client for the DSMZ's Bacterial Diversity Metadatabase (former contact: @katrinleinweber). https://api.bacdive.dsmz.de/client_examples seems to be the official alternatives.

The BV-BRC Web Application

An R/Shiny Package for Bacterial TSS extraction, using Cappable-seq

Condense and summarize many results form PADLOC into CSV for heatmaps

Computer vision in the service of bacteriology refers to the use of computer algorithms and technology to analyze and interpret images of bacteria for the purpose of identifying and characterizing different types of bacteria.

code used in van Raaphorst, Kjos & Veening (2017), Chromosome segregation drives division site selection in Streptococcus pneumoniae, PNAS

Bacterial gene duplication analysis pipeline

The BV-BRC Web Application

Variant barcoding pipeline using single nucleotide polymorphisms (SNPs) for the generation of M. orygis standardised markers for diagnostic and epidemiological use.

Curve Growth modeling-IPASS project

Learn antimicrobial susceptibility testing techniques and how whole-genome sequencing and bioinformatics can be used to understand AMR

Docker-based implementation of the Discover1.1 pipeline for bacterial characterization.

🔗 A simple nextflow of shovill for running multiple samples at once on multiple cores computer or HPC (i.e. slurm, sge,...)

normalizing metagenomics abundances based on OTU abundances.

Docker-based implementation of the Discover1.1 pipeline for bacterial characterization.