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Bento, the office suite that fits in a file
q - Run SQL directly on delimited files and multi-file sqlite databases
A pipeline for running AMRfinderPlus and collating results into functional classes
CLI tools to access, query, and download data from AllTheBacteria database.
A list of interesting genome browser and genome visualization programs
Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial properties by using evidence-based methods, as described in https://d…
The AMRgen package provides tools for interpreting antimicrobial resistance (AMR) genes, integrating genomic data with phenotypic antimicrobial susceptibility testing (AST) data, and calculating ge…
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
This is the webpage of the ESGEM-AMR Working Group
StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
This repository contains tools and resources developed by Team Prasad Feldgarden during the "Resistance is Futile: A Codeathon to Combat Antimicrobial Resistance" (September 2024), hosted by NCBI a…
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
check links in web documents or full websites
Friends don't let friends make certain types of data visualization - What are they and why are they bad.
Collection of cloud-based biomedical data science learning modules funded by the National Institute of General Medical Sciences at the NIH
modern full-featured open source secure mail server for low-maintenance self-hosted email
Do calculations, annotate like you would on a paper "qwikly".
Collection of bioinformatics training materials
Conda recipes for the bioconda channel.
MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biotoul.fr/)