In silico multi-locus sequence typing (MLST) for bacterial genomes
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Updated
Apr 20, 2018
In silico multi-locus sequence typing (MLST) for bacterial genomes
Determine the MLST sequence type for samples using PubMLST schemes in the IRIDA system
Collection of scripts for bacterial genomics
Fast k-mer based tool for multi locus sequence typing (MLST)
An easy way of MLSTyping your genomes in R.
A companion application for analyzing and viewing BTyper output files in aggregate
List and download schemes from pubMLST.org and other BIGSDB servers
GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click the first link to launch: https://achtman-lab.github.io/GrapeTree/MSTree_holder.html
Scripts used to generate the analyses and figures in the paper "Systems-based approach for optimization of a scalable bacterial ST mapping assembly-free algorithm".
Epitypification pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
mlst2dist.py computes a distance matrix from a chewBBACA MLST alleles table, using Hamming Distance modified with correction for missing data
Rapid, in silico characterization of Bacillus cereus group isolates using WGS data
A tool for conducting a gene screen on assemblies, producing an SRST2-like output.
MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
stringMLST datasets
A collection of bioinformatics tools for use with galaxy written at Quadram Institute
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