BSR-Based Allele Calling Algorithm
-
Updated
Sep 9, 2024 - HTML
BSR-Based Allele Calling Algorithm
SISTR (Salmonella In Silico Typing Resource) command-line tool
🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
cg/wgMLST allele calling software, schema evaluation and allele distance estimation for outbreak reserch.
Repository for the pneumococcal cgMLST typing scheme (pneumococcal genome library)
Proof of concept implementation for indexed similarity search of a cgMLST profile against a database.
A cgMLST pipeline based on the KMA aligner
Epitypification pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
The python multithreaded version of the famous cgmlst-dists bioinformatic tool by Torsten Seemann
Enterobase scheme scraper. Download and list available schemes from Enterobase, and find their last modification date and time.
rest.pubmlst.org webpage scraper. Download and list available schemes and profiles from PubMLST API, and find their last modification date using command line.
Scripts to support clustering of cgMLST allele profiles
PhyloTrace is a GUI platform for bacterial monitoring offering a toolkit of analyses like hashed cgMLST typing and Antimicrobial Resistance Screening.
cgMLST.org webpage scraper. Download and list available schemes from cgMLST.org, and find their versions and last modification date and time.
mlst2dist.py computes a distance matrix from a chewBBACA MLST alleles table, using Hamming Distance modified with correction for missing data
Add a description, image, and links to the cgmlst topic page so that developers can more easily learn about it.
To associate your repository with the cgmlst topic, visit your repo's landing page and select "manage topics."