BSR-Based Allele Calling Algorithm

Making whole bacterial genome sequencing data analysis easy

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

CGView is a Java package for generating high-quality, zoomable maps of circular genomes.

The CGView Comparison Tool (CCT) is a package for visually comparing bacterial, plasmid, chloroplast, and mitochondrial sequences.

Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).

AMR/VF LGT focused bacterial genomics analysis workflow

ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.

Origin of Chromosomal Replication Assessment. Python tool for the analysis of circular bacterial DNA sequences in order to find their origin of replication.

Genomewide Epistasis Analysis on Bacteria

Detect complete horizontal gene transfer (HGT) event rapidly and accurately from complex metagenomics data.

A nextflow pipeline for performing bacterial RNA-Seq data analysis.

A tool to detect acquired AMR genes directly from long read sequencing data.

DELEAT is a bioinformatic analysis pipeline for the design of large-scale genome deletions in bacterial genomes.

A snakemake workflow for regions of difference discovery in Mycobacterium tuberculosis complex (MTBC) samples

Reproducible and comprehensive sequence analyses for single-species bacterial dataset

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.

Food wastE biopEptiDe claSsifier: from microbial genome to biopeptides function

Analyzes the GC skew of bacterial chromosomes using multiple calculations. Outputs a data frame of GC skew values and wiggle files for visualization.

Medium scale identification of genomic neighbors in bacterial genomes